/*
 * @file    TestCopyAndClone.java
 * @brief   Read SBML unit tests
 *
 * @author  Akiya Jouraku (Java conversion)
 * @author  Ben Bornstein 
 *
 * $Id$
 * $HeadURL$
 *
 * ====== WARNING ===== WARNING ===== WARNING ===== WARNING ===== WARNING ======
 *
 * DO NOT EDIT THIS FILE.
 *
 * This file was generated automatically by converting the file located at
 * src/sbml/test/TestCopyAndClone.cpp
 * using the conversion program dev/utilities/translateTests/translateTests.pl.
 * Any changes made here will be lost the next time the file is regenerated.
 *
 * -----------------------------------------------------------------------------
 * This file is part of libSBML.  Please visit http://sbml.org for more
 * information about SBML, and the latest version of libSBML.
 *
 * Copyright 2005-2010 California Institute of Technology.
 * Copyright 2002-2005 California Institute of Technology and
 *                     Japan Science and Technology Corporation.
 * 
 * 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
 * -----------------------------------------------------------------------------
 */

package org.sbml.libsbml.test.sbml;

import org.sbml.libsbml.*;

import java.io.File;
import java.lang.AssertionError;

public class TestCopyAndClone {

  static void assertTrue(boolean condition) throws AssertionError
  {
    if (condition == true)
    {
      return;
    }
    throw new AssertionError();
  }

  static void assertEquals(Object a, Object b) throws AssertionError
  {
    if ( (a == null) && (b == null) )
    {
      return;
    }
    else if ( (a == null) || (b == null) )
    {
      throw new AssertionError();
    }
    else if (a.equals(b))
    {
      return;
    }

    throw new AssertionError();
  }

  static void assertNotEquals(Object a, Object b) throws AssertionError
  {
    if ( (a == null) && (b == null) )
    {
      throw new AssertionError();
    }
    else if ( (a == null) || (b == null) )
    {
      return;
    }
    else if (a.equals(b))
    {
      throw new AssertionError();
    }
  }

  static void assertEquals(boolean a, boolean b) throws AssertionError
  {
    if ( a == b )
    {
      return;
    }
    throw new AssertionError();
  }

  static void assertNotEquals(boolean a, boolean b) throws AssertionError
  {
    if ( a != b )
    {
      return;
    }
    throw new AssertionError();
  }

  static void assertEquals(int a, int b) throws AssertionError
  {
    if ( a == b )
    {
      return;
    }
    throw new AssertionError();
  }

  static void assertNotEquals(int a, int b) throws AssertionError
  {
    if ( a != b )
    {
      return;
    }
    throw new AssertionError();
  }

  public void test_CompartmentType_assignmentOperator()
  {
    CompartmentType o1 = new CompartmentType(2,4);
    o1.setId("c");
    assertTrue( o1.getId().equals( "c") );
    CompartmentType o2 = new CompartmentType(2,4);
    o2 = o1;
    assertTrue( o2.getId().equals( "c") );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_CompartmentType_clone()
  {
    CompartmentType o1 = new CompartmentType(2,4);
    o1.setId("c");
    assertTrue( o1.getId().equals( "c") );
    CompartmentType o2 = o1.cloneObject();
    assertTrue( o2.getId().equals( "c") );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_CompartmentType_copyConstructor()
  {
    CompartmentType o1 = new CompartmentType(2,4);
    o1.setId("c");
    assertTrue( o1.getId().equals( "c") );
    CompartmentType o2 = new CompartmentType(o1);
    assertTrue( o2.getId().equals( "c") );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_Compartment_assignmentOperator()
  {
    Compartment o1 = new Compartment(2,4);
    o1.setId("c");
    o1.setOutside("c2");
    assertTrue( o1.getId().equals( "c") );
    assertTrue( o1.getOutside().equals( "c2") );
    Compartment o2 = new Compartment(2,4);
    o2 = o1;
    assertTrue( o2.getId().equals( "c") );
    assertTrue( o2.getOutside().equals( "c2") );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_Compartment_clone()
  {
    Compartment o1 = new Compartment(2,4);
    o1.setId("c");
    o1.setOutside("c2");
    assertTrue( o1.getId().equals( "c") );
    assertTrue( o1.getOutside().equals( "c2") );
    Compartment o2 = o1.cloneObject();
    assertTrue( o2.getId().equals( "c") );
    assertTrue( o2.getOutside().equals( "c2") );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_Compartment_copyConstructor()
  {
    Compartment o1 = new Compartment(2,4);
    o1.setId("c");
    o1.setOutside("c2");
    assertTrue( o1.getId().equals( "c") );
    assertTrue( o1.getOutside().equals( "c2") );
    Compartment o2 = new Compartment(o1);
    assertTrue( o2.getId().equals( "c") );
    assertTrue( o2.getOutside().equals( "c2") );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_Constraint_assignmentOperator()
  {
    Constraint o1 = new Constraint(2,4);
    o1.setMetaId("c");
    assertTrue( o1.getMetaId().equals( "c") );
    XMLNode text = XMLNode.convertStringToXMLNode(" Some text ");
    XMLTriple triple = new XMLTriple("p", "http://www.w3.org/1999/xhtml", "");
    XMLAttributes att = new XMLAttributes();
    XMLNamespaces xmlns = new XMLNamespaces();
    xmlns.add("http://www.w3.org/1999/xhtml");
    XMLNode p = new XMLNode(triple,att,xmlns);
    p.addChild(text);
    XMLTriple triple1 = new XMLTriple("message", "", "");
    XMLAttributes att1 = new XMLAttributes();
    XMLNode message = new XMLNode(triple1,att1);
    message.addChild(p);
    ASTNode math = new ASTNode(libsbml.AST_CONSTANT_PI);
    o1.setMath(math);
    o1.setMessage(message);
    math = null;
    message = null;
    XMLNode msg;
    assertTrue( o1.getMath() != null );
    msg = o1.getMessage();
    assertTrue( msg != null );
    Constraint o2 = new Constraint(2,4);
    o2 = o1;
    assertTrue( o2.getMetaId().equals( "c") );
    assertTrue( o2.getMath() != null );
    msg = o2.getMessage();
    assertTrue( msg != null );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_Constraint_clone()
  {
    Constraint o1 = new Constraint(2,4);
    o1.setMetaId("c");
    assertTrue( o1.getMetaId().equals( "c") );
    XMLNode text = XMLNode.convertStringToXMLNode(" Some text ");
    XMLTriple triple = new XMLTriple("p", "http://www.w3.org/1999/xhtml", "");
    XMLAttributes att = new XMLAttributes();
    XMLNamespaces xmlns = new XMLNamespaces();
    xmlns.add("http://www.w3.org/1999/xhtml");
    XMLNode p = new XMLNode(triple,att,xmlns);
    p.addChild(text);
    XMLTriple triple1 = new XMLTriple("message", "", "");
    XMLAttributes att1 = new XMLAttributes();
    XMLNode message = new XMLNode(triple1,att1);
    message.addChild(p);
    ASTNode math = new ASTNode(libsbml.AST_CONSTANT_PI);
    o1.setMath(math);
    o1.setMessage(message);
    math = null;
    message = null;
    XMLNode msg;
    assertTrue( o1.getMath() != null );
    msg = o1.getMessage();
    assertTrue( msg != null );
    Constraint o2 = o1.cloneObject();
    assertTrue( o2.getMetaId().equals( "c") );
    assertTrue( o2.getMath() != null );
    msg = o2.getMessage();
    assertTrue( msg != null );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_Constraint_copyConstructor()
  {
    Constraint o1 = new Constraint(2,4);
    o1.setMetaId("c");
    assertTrue( o1.getMetaId().equals( "c") );
    XMLNode text = XMLNode.convertStringToXMLNode(" Some text ");
    XMLTriple triple = new XMLTriple("p", "http://www.w3.org/1999/xhtml", "");
    XMLAttributes att = new XMLAttributes();
    XMLNamespaces xmlns = new XMLNamespaces();
    xmlns.add("http://www.w3.org/1999/xhtml");
    XMLNode p = new XMLNode(triple,att,xmlns);
    p.addChild(text);
    XMLTriple triple1 = new XMLTriple("message", "", "");
    XMLAttributes att1 = new XMLAttributes();
    XMLNode message = new XMLNode(triple1,att1);
    message.addChild(p);
    ASTNode math = new ASTNode(libsbml.AST_CONSTANT_PI);
    o1.setMath(math);
    o1.setMessage(message);
    math = null;
    message = null;
    XMLNode msg;
    assertTrue( o1.getMath() != null );
    msg = o1.getMessage();
    assertTrue( msg != null );
    Constraint o2 = new Constraint(o1);
    assertTrue( o2.getMetaId().equals( "c") );
    assertTrue( o2.getMath() != null );
    msg = o2.getMessage();
    assertTrue( msg != null );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_Delay_assignmentOperator()
  {
    Delay o1 = new Delay(2,4);
    ASTNode node = new ASTNode(libsbml.AST_CONSTANT_PI);
    o1.setMath(node);
    node = null;
    assertTrue( o1.getMath() != null );
    Delay o2 = new Delay(2,4);
    o2 = o1;
    assertTrue( o1.getMath() != null );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_Delay_clone()
  {
    Delay o1 = new Delay(2,4);
    ASTNode node = new ASTNode(libsbml.AST_CONSTANT_PI);
    o1.setMath(node);
    node = null;
    assertTrue( o1.getMath() != null );
    Delay o2 = o1.cloneObject();
    assertTrue( o1.getMath() != null );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_Delay_copyConstructor()
  {
    Delay o1 = new Delay(2,4);
    ASTNode node = new ASTNode(libsbml.AST_CONSTANT_PI);
    o1.setMath(node);
    node = null;
    assertTrue( o1.getMath() != null );
    Delay o2 = new Delay(o1);
    assertTrue( o2.getMath() != null );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_EventAssignment_assignmentOperator()
  {
    EventAssignment o1 = new EventAssignment(2,4);
    o1.setVariable("c2");
    assertTrue( o1.getVariable().equals( "c2") );
    ASTNode node = new ASTNode(libsbml.AST_CONSTANT_PI);
    o1.setMath(node);
    node = null;
    assertTrue( o1.getMath() != null );
    EventAssignment o2 = new EventAssignment(2,4);
    o2 = o1;
    assertTrue( o2.getVariable().equals( "c2") );
    assertTrue( o2.getMath() != null );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_EventAssignment_clone()
  {
    EventAssignment o1 = new EventAssignment(2,4);
    o1.setVariable("c2");
    assertTrue( o1.getVariable().equals( "c2") );
    ASTNode node = new ASTNode(libsbml.AST_CONSTANT_PI);
    o1.setMath(node);
    node = null;
    assertTrue( o1.getMath() != null );
    EventAssignment o2 = o1.cloneObject();
    assertTrue( o2.getVariable().equals( "c2") );
    assertTrue( o2.getMath() != null );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_EventAssignment_copyConstructor()
  {
    EventAssignment o1 = new EventAssignment(2,4);
    o1.setVariable("c2");
    assertTrue( o1.getVariable().equals( "c2") );
    ASTNode node = new ASTNode(libsbml.AST_CONSTANT_PI);
    o1.setMath(node);
    node = null;
    assertTrue( o1.getMath() != null );
    EventAssignment o2 = new EventAssignment(o1);
    assertTrue( o2.getVariable().equals( "c2") );
    assertTrue( o2.getMath() != null );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_Event_assignmentOperator()
  {
    Event o1 = new Event(2,4);
    o1.setId("c");
    assertTrue( o1.getId().equals( "c") );
    Event o2 = new Event(2,4);
    o2 = o1;
    assertTrue( o2.getId().equals( "c") );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_Event_clone()
  {
    Event o1 = new Event(2,4);
    o1.setId("c");
    assertTrue( o1.getId().equals( "c") );
    Event o2 = o1.cloneObject();
    assertTrue( o2.getId().equals( "c") );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_Event_copyConstructor()
  {
    Event o1 = new Event(2,4);
    o1.setId("c");
    assertTrue( o1.getId().equals( "c") );
    Event o2 = new Event(o1);
    assertTrue( o2.getId().equals( "c") );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_FunctionDefinition_assignmentOperator()
  {
    FunctionDefinition o1 = new FunctionDefinition(2,4);
    o1.setId("c");
    assertTrue( o1.getId().equals( "c") );
    ASTNode node = new ASTNode(libsbml.AST_CONSTANT_PI);
    o1.setMath(node);
    node = null;
    assertTrue( o1.getMath() != null );
    FunctionDefinition o2 = new FunctionDefinition(2,4);
    o2 = o1;
    assertTrue( o2.getId().equals( "c") );
    assertTrue( o2.getMath() != null );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_FunctionDefinition_clone()
  {
    FunctionDefinition o1 = new FunctionDefinition(2,4);
    o1.setId("c");
    assertTrue( o1.getId().equals( "c") );
    ASTNode node = new ASTNode(libsbml.AST_CONSTANT_PI);
    o1.setMath(node);
    node = null;
    assertTrue( o1.getMath() != null );
    FunctionDefinition o2 = o1.cloneObject();
    assertTrue( o2.getId().equals( "c") );
    assertTrue( o2.getMath() != null );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_FunctionDefinition_copyConstructor()
  {
    FunctionDefinition o1 = new FunctionDefinition(2,4);
    o1.setId("c");
    assertTrue( o1.getId().equals( "c") );
    ASTNode node = new ASTNode(libsbml.AST_CONSTANT_PI);
    o1.setMath(node);
    node = null;
    assertTrue( o1.getMath() != null );
    FunctionDefinition o2 = new FunctionDefinition(o1);
    assertTrue( o2.getId().equals( "c") );
    assertTrue( o2.getMath() != null );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_InitialAssignment_assignmentOperator()
  {
    InitialAssignment o1 = new InitialAssignment(2,4);
    o1.setSymbol("c");
    assertTrue( o1.getId().equals( "c") );
    InitialAssignment o2 = new InitialAssignment(2,4);
    o2 = o1;
    assertTrue( o2.getId().equals( "c") );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_InitialAssignment_clone()
  {
    InitialAssignment o1 = new InitialAssignment(2,4);
    o1.setSymbol("c");
    assertTrue( o1.getId().equals( "c") );
    InitialAssignment o2 = o1.cloneObject();
    assertTrue( o2.getId().equals( "c") );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_InitialAssignment_copyConstructor()
  {
    InitialAssignment o1 = new InitialAssignment(2,4);
    o1.setSymbol("c");
    assertTrue( o1.getId().equals( "c") );
    InitialAssignment o2 = new InitialAssignment(o1);
    assertTrue( o2.getId().equals( "c") );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_KineticLaw_assignmentOperator()
  {
    KineticLaw o1 = new KineticLaw(2,4);
    Parameter p = new Parameter(2,4);
    p.setId("jake");
    o1.addParameter(p);
    p = null;
    assertTrue( o1.getNumParameters() == 1 );
    assertTrue( o1.getParameter(0).getId().equals( "jake") );
    KineticLaw o2 = new KineticLaw(2,4);
    o2 = o1;
    assertTrue( o2.getNumParameters() == 1 );
    assertTrue( o2.getParameter(0).getId().equals( "jake") );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_KineticLaw_clone()
  {
    KineticLaw o1 = new KineticLaw(2,4);
    Parameter p = new Parameter(2,4);
    p.setId("jake");
    o1.addParameter(p);
    p = null;
    assertTrue( o1.getNumParameters() == 1 );
    assertTrue( o1.getParameter(0).getId().equals( "jake") );
    KineticLaw o2 = o1.cloneObject();
    assertTrue( o2.getNumParameters() == 1 );
    assertTrue( o2.getParameter(0).getId().equals( "jake") );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_KineticLaw_copyConstructor()
  {
    KineticLaw o1 = new KineticLaw(2,4);
    Parameter p = new Parameter(2,4);
    p.setId("jake");
    o1.addParameter(p);
    p = null;
    assertTrue( o1.getNumParameters() == 1 );
    assertTrue( o1.getParameter(0).getId().equals( "jake") );
    KineticLaw o2 = new KineticLaw(o1);
    assertTrue( o2.getNumParameters() == 1 );
    assertTrue( o2.getParameter(0).getId().equals( "jake") );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_ListOf_assignmentOperator()
  {
    ListOf o1 = new ListOf();
    Species s = new Species(2,1);
    s.setId("species_1");
    o1.append(s);
    s = null;
    ListOf o2 = new ListOf();
    o2 = o1;
    assertTrue( o2.size() == 1 );
    assertTrue( ((Species) o2.get(0)).getId().equals( "species_1") );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_ListOf_clone()
  {
    ListOf o1 = new ListOf();
    Species s = new Species(2,1);
    s.setId("species_1");
    o1.append(s);
    s = null;
    ListOf o2 = (ListOf) o1.cloneObject();
    assertTrue( o2.size() == 1 );
    assertTrue( ((Species) o2.get(0)).getId().equals( "species_1") );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_ListOf_copyConstructor()
  {
    ListOf o1 = new ListOf();
    Species s = new Species(2,1);
    s.setId("species_1");
    o1.append(s);
    s = null;
    ListOf o2 = new ListOf(o1);
    assertTrue( o2.size() == 1 );
    assertTrue( ((Species) o2.get(0)).getId().equals( "species_1") );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_Parameter_assignmentOperator()
  {
    Parameter o1 = new Parameter(2,4);
    o1.setId("c");
    assertTrue( o1.getId().equals( "c") );
    Parameter o2 = new Parameter(2,4);
    o2 = o1;
    assertTrue( o2.getId().equals( "c") );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_Parameter_clone()
  {
    Parameter o1 = new Parameter(2,4);
    o1.setId("c");
    assertTrue( o1.getId().equals( "c") );
    Parameter o2 = o1.cloneObject();
    assertTrue( o2.getId().equals( "c") );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_Parameter_copyConstructor()
  {
    Parameter o1 = new Parameter(2,4);
    o1.setId("c");
    assertTrue( o1.getId().equals( "c") );
    Parameter o2 = new Parameter(o1);
    assertTrue( o2.getId().equals( "c") );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_Reaction_assignmentOperator()
  {
    Reaction o1 = new Reaction(2,4);
    o1.setId("c");
    assertTrue( o1.getId().equals( "c") );
    KineticLaw kl = new KineticLaw(2,4);
    o1.setKineticLaw(kl);
    kl = null;
    assertTrue( o1.isSetKineticLaw() == true );
    assertNotEquals(o1.getKineticLaw(),null);
    Reaction o2 = new Reaction(2,4);
    o2 = o1;
    assertTrue( o2.getId().equals( "c") );
    assertTrue( o2.isSetKineticLaw() == true );
    assertNotEquals(o2.getKineticLaw(),null);
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_Reaction_clone()
  {
    Reaction o1 = new Reaction(2,4);
    o1.setId("c");
    assertTrue( o1.getId().equals( "c") );
    KineticLaw kl = new KineticLaw(2,4);
    o1.setKineticLaw(kl);
    kl = null;
    assertTrue( o1.isSetKineticLaw() == true );
    assertNotEquals(o1.getKineticLaw(),null);
    Reaction o2 = o1.cloneObject();
    assertTrue( o2.getId().equals( "c") );
    assertTrue( o2.isSetKineticLaw() == true );
    assertNotEquals(o2.getKineticLaw(),null);
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_Reaction_copyConstructor()
  {
    Reaction o1 = new Reaction(2,4);
    o1.setId("c");
    assertTrue( o1.getId().equals( "c") );
    KineticLaw kl = new KineticLaw(2,4);
    o1.setKineticLaw(kl);
    kl = null;
    assertTrue( o1.isSetKineticLaw() == true );
    assertNotEquals(o1.getKineticLaw(),null);
    Reaction o2 = new Reaction(o1);
    assertTrue( o2.getId().equals( "c") );
    assertTrue( o2.isSetKineticLaw() == true );
    assertNotEquals(o2.getKineticLaw(),null);
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_Rule_assignmentOperator()
  {
    Rule o1 = new RateRule(2,4);
    o1.setVariable("a");
    assertTrue( o1.getVariable().equals( "a") );
    ASTNode node = new ASTNode(libsbml.AST_CONSTANT_PI);
    o1.setMath(node);
    node = null;
    assertTrue( o1.isSetMath() == true );
    Rule o2 = new RateRule(2,4);
    o2 = o1;
    assertTrue( o2.getVariable().equals( "a") );
    assertTrue( o2.isSetMath() == true );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_Rule_clone()
  {
    Rule o1 = new RateRule(2,1);
    o1.setVariable("a");
    assertTrue( o1.getVariable().equals( "a") );
    ASTNode node = new ASTNode(libsbml.AST_CONSTANT_PI);
    o1.setMath(node);
    node = null;
    assertTrue( o1.isSetMath() == true );
    Rule o2 = o1.cloneObject();
    assertTrue( o2.getVariable().equals( "a") );
    assertTrue( o2.isSetMath() == true );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_Rule_copyConstructor()
  {
    Rule o1 = new RateRule(2,1);
    o1.setVariable("a");
    assertTrue( o1.getVariable().equals( "a") );
    ASTNode node = new ASTNode(libsbml.AST_CONSTANT_PI);
    o1.setMath(node);
    node = null;
    assertTrue( o1.isSetMath() == true );
    Rule o2 = new Rule(o1);
    assertTrue( o2.getVariable().equals( "a") );
    assertTrue( o2.isSetMath() == true );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_SBMLDocument_assignmentOperator()
  {
    SBMLDocument o1 = new SBMLDocument();
    o1.setLevelAndVersion(2,1,false);
    assertTrue( o1.getLevel() == 2 );
    assertTrue( o1.getVersion() == 1 );
    SBMLDocument o2 = new SBMLDocument();
    o2 = o1;
    assertTrue( o2.getLevel() == 2 );
    assertTrue( o2.getVersion() == 1 );
    o2 = null;
    o1 = null;
  }

  public void test_SBMLDocument_clone()
  {
    SBMLDocument o1 = new SBMLDocument();
    o1.setLevelAndVersion(1,1,false);
    Model m = new Model(1,1);
    m.setId("foo");
    o1.setModel(m);
    assertTrue( o1.getLevel() == 1 );
    assertTrue( o1.getVersion() == 1 );
    assertTrue( o1.getModel().getId().equals( "foo") );
    assertTrue( o1.getModel().getLevel() == 1 );
    assertTrue( o1.getModel().getVersion() == 1 );
    assertTrue( o1.getModel().getSBMLDocument().equals(o1) );
    SBMLDocument o2 = o1.cloneObject();
    assertTrue( o2.getLevel() == 1 );
    assertTrue( o2.getVersion() == 1 );
    assertTrue( o2.getModel().getId().equals( "foo") );
    assertTrue( o2.getModel().getLevel() == 1 );
    assertTrue( o2.getModel().getVersion() == 1 );
    assertTrue( o2.getModel().getSBMLDocument().equals(o2) );
    o2 = null;
    o1 = null;
  }

  public void test_SBMLDocument_copyConstructor()
  {
    SBMLDocument o1 = new SBMLDocument();
    o1.setLevelAndVersion(2,1,false);
    assertTrue( o1.getLevel() == 2 );
    assertTrue( o1.getVersion() == 1 );
    SBMLDocument o2 = new SBMLDocument(o1);
    assertTrue( o2.getLevel() == 2 );
    assertTrue( o2.getVersion() == 1 );
    o2 = null;
    o1 = null;
  }

  public void test_SpeciesReference_assignmentOperator()
  {
    SpeciesReference o1 = new SpeciesReference(2,4);
    o1.setId("c");
    assertTrue( o1.getId().equals( "c") );
    SpeciesReference o2 = new SpeciesReference(2,4);
    o2 = o1;
    assertTrue( o2.getId().equals( "c") );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_SpeciesReference_clone()
  {
    SpeciesReference o1 = new SpeciesReference(2,4);
    o1.setId("c");
    assertTrue( o1.getId().equals( "c") );
    SpeciesReference o2 = o1.cloneObject();
    assertTrue( o2.getId().equals( "c") );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_SpeciesReference_copyConstructor()
  {
    SpeciesReference o1 = new SpeciesReference(2,4);
    o1.setId("c");
    assertTrue( o1.getId().equals( "c") );
    SpeciesReference o2 = new SpeciesReference(o1);
    assertTrue( o2.getId().equals( "c") );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_SpeciesType_assignmentOperator()
  {
    SpeciesType o1 = new SpeciesType(2,4);
    o1.setId("c");
    assertTrue( o1.getId().equals( "c") );
    SpeciesType o2 = new SpeciesType(2,4);
    o2 = o1;
    assertTrue( o2.getId().equals( "c") );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_SpeciesType_clone()
  {
    SpeciesType o1 = new SpeciesType(2,4);
    o1.setId("c");
    assertTrue( o1.getId().equals( "c") );
    SpeciesType o2 = o1.cloneObject();
    assertTrue( o2.getId().equals( "c") );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_SpeciesType_copyConstructor()
  {
    SpeciesType o1 = new SpeciesType(2,4);
    o1.setId("c");
    assertTrue( o1.getId().equals( "c") );
    SpeciesType o2 = new SpeciesType(o1);
    assertTrue( o2.getId().equals( "c") );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_Species_assignmentOperator()
  {
    Species o1 = new Species(2,4);
    o1.setId("c");
    o1.setSpeciesType("c1");
    assertTrue( o1.getId().equals( "c") );
    assertEquals(o1.getSpeciesType(), "c1");
    Species o2 = new Species(2,4);
    o2 = o1;
    assertTrue( o2.getId().equals( "c") );
    assertEquals(o2.getSpeciesType(), "c1");
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_Species_clone()
  {
    Species o1 = new Species(2,4);
    o1.setId("c");
    o1.setSpeciesType("c1");
    assertTrue( o1.getId().equals( "c") );
    assertEquals(o1.getSpeciesType(), "c1");
    Species o2 = o1.cloneObject();
    assertTrue( o2.getId().equals( "c") );
    assertEquals(o2.getSpeciesType(), "c1");
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_Species_copyConstructor()
  {
    Species o1 = new Species(2,4);
    o1.setId("c");
    o1.setSpeciesType("c1");
    assertTrue( o1.getId().equals( "c") );
    assertEquals(o1.getSpeciesType(), "c1");
    Species o2 = new Species(o1);
    assertTrue( o2.getId().equals( "c") );
    assertEquals(o2.getSpeciesType(), "c1");
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_Trigger_assignmentOperator()
  {
    Trigger o1 = new Trigger(2,4);
    ASTNode node = new ASTNode(libsbml.AST_CONSTANT_PI);
    o1.setMath(node);
    node = null;
    assertTrue( o1.getMath() != null );
    Trigger o2 = new Trigger(2,4);
    o2 = o1;
    assertTrue( o1.getMath() != null );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_Trigger_clone()
  {
    Trigger o1 = new Trigger(2,4);
    ASTNode node = new ASTNode(libsbml.AST_CONSTANT_PI);
    o1.setMath(node);
    node = null;
    assertTrue( o1.getMath() != null );
    Trigger o2 = o1.cloneObject();
    assertTrue( o1.getMath() != null );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_Trigger_copyConstructor()
  {
    Trigger o1 = new Trigger(2,4);
    ASTNode node = new ASTNode(libsbml.AST_CONSTANT_PI);
    o1.setMath(node);
    node = null;
    assertTrue( o1.getMath() != null );
    Trigger o2 = new Trigger(o1);
    assertTrue( o2.getMath() != null );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_UnitDefinition_assignmentOperator()
  {
    UnitDefinition o1 = new UnitDefinition(2,4);
    o1.setId("c");
    assertTrue( o1.getId().equals( "c") );
    UnitDefinition o2 = new UnitDefinition(2,4);
    o2 = o1;
    assertTrue( o2.getId().equals( "c") );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_UnitDefinition_clone()
  {
    UnitDefinition o1 = new UnitDefinition(2,4);
    o1.setId("c");
    assertTrue( o1.getId().equals( "c") );
    UnitDefinition o2 = o1.cloneObject();
    assertTrue( o2.getId().equals( "c") );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_UnitDefinition_copyConstructor()
  {
    UnitDefinition o1 = new UnitDefinition(2,4);
    o1.setId("c");
    assertTrue( o1.getId().equals( "c") );
    UnitDefinition o2 = new UnitDefinition(o1);
    assertTrue( o2.getId().equals( "c") );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_Unit_assignmentOperator()
  {
    Unit o1 = new Unit(2,4);
    o1.setKind(libsbml.UNIT_KIND_MOLE);
    assertTrue( o1.getKind() == libsbml.UNIT_KIND_MOLE );
    Unit o2 = new Unit(2,4);
    o2 = o1;
    assertTrue( o2.getKind() == libsbml.UNIT_KIND_MOLE );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_Unit_clone()
  {
    Unit o1 = new Unit(2,4);
    o1.setKind(libsbml.UNIT_KIND_MOLE);
    assertTrue( o1.getKind() == libsbml.UNIT_KIND_MOLE );
    Unit o2 = o1.cloneObject();
    assertTrue( o2.getKind() == libsbml.UNIT_KIND_MOLE );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  public void test_Unit_copyConstructor()
  {
    Unit o1 = new Unit(2,4);
    o1.setKind(libsbml.UNIT_KIND_MOLE);
    assertTrue( o1.getKind() == libsbml.UNIT_KIND_MOLE );
    Unit o2 = new Unit(o1);
    assertTrue( o2.getKind() == libsbml.UNIT_KIND_MOLE );
    assertTrue( o2.getParentSBMLObject() == o1.getParentSBMLObject() );
    o2 = null;
    o1 = null;
  }

  /**
   * Loads the SWIG-generated libSBML Java module when this class is
   * loaded, or reports a sensible diagnostic message about why it failed.
   */
  static
  {
    String varname;
    String shlibname;

    if (System.getProperty("mrj.version") != null)
    {
      varname = "DYLD_LIBRARY_PATH";    // We're on a Mac.
      shlibname = "libsbmlj.jnilib and/or libsbml.dylib";
    }
    else
    {
      varname = "LD_LIBRARY_PATH";      // We're not on a Mac.
      shlibname = "libsbmlj.so and/or libsbml.so";
    }

    try
    {
      System.loadLibrary("sbmlj");
      // For extra safety, check that the jar file is in the classpath.
      Class.forName("org.sbml.libsbml.libsbml");
    }
    catch (SecurityException e)
    {
      e.printStackTrace();
      System.err.println("Could not load the libSBML library files due to a"+
                         " security exception.\n");
      System.exit(1);
    }
    catch (UnsatisfiedLinkError e)
    {
      e.printStackTrace();
      System.err.println("Error: could not link with the libSBML library files."+
                         " It is likely\nyour " + varname +
                         " environment variable does not include the directories\n"+
                         "containing the " + shlibname + " library files.\n");
      System.exit(1);
    }
    catch (ClassNotFoundException e)
    {
      e.printStackTrace();
      System.err.println("Error: unable to load the file libsbmlj.jar."+
                         " It is likely\nyour -classpath option and CLASSPATH" +
                         " environment variable\n"+
                         "do not include the path to libsbmlj.jar.\n");
      System.exit(1);
    }
  }
}
