public void test_create_l1v1_units()
{
SBMLDocument d;
Model m;
Compartment c;
KineticLaw kl;
Parameter p;
Reaction r;
Species s;
SpeciesReference sr;
Unit u;
UnitDefinition ud;
d = new SBMLDocument();
m = new Model(2,4);
d.setModel(m);
ud = m.createUnitDefinition();
ud.setName( "substance");
u = m.createUnit();
u.setKind(libsbml.UNIT_KIND_MOLE);
u.setScale(-3);
ud = m.createUnitDefinition();
ud.setName( "mls");
u = m.createUnit();
u.setKind(libsbml.UNIT_KIND_MOLE);
u.setScale(-3);
u = m.createUnit();
u.setKind(libsbml.UNIT_KIND_LITER);
u.setExponent(-1);
u = m.createUnit();
u.setKind(libsbml.UNIT_KIND_SECOND);
u.setExponent(-1);
c = m.createCompartment();
c.setName( "cell");
s = m.createSpecies();
s.setName( "x0");
s.setCompartment( "cell");
s.setInitialAmount(1);
s = m.createSpecies();
s.setName( "x1");
s.setCompartment( "cell");
s.setInitialAmount(1);
s = m.createSpecies();
s.setName( "s1");
s.setCompartment( "cell");
s.setInitialAmount(1);
s = m.createSpecies();
s.setName( "s2");
s.setCompartment( "cell");
s.setInitialAmount(1);
p = m.createParameter();
p.setName( "vm");
p.setUnits( "mls");
p.setValue(2);
p = m.createParameter();
p.setName( "km");
p.setValue(2);
r = m.createReaction();
r.setName( "v1");
sr = m.createReactant();
sr.setSpecies( "x0");
sr = m.createProduct();
sr.setSpecies( "s1");
kl = m.createKineticLaw();
kl.setFormula( "(vm * s1)/(km + s1)");
r = m.createReaction();
r.setName( "v2");
sr = m.createReactant();
sr.setSpecies( "s1");
sr = m.createProduct();
sr.setSpecies( "s2");
kl = m.createKineticLaw();
kl.setFormula( "(vm * s2)/(km + s2)");
r = m.createReaction();
r.setName( "v3");
sr = m.createReactant();
sr.setSpecies( "s2");
sr = m.createProduct();
sr.setSpecies( "x1");
kl = m.createKineticLaw();
kl.setFormula( "(vm * s1)/(km + s1)");
d = null;
}
public void test_KineticLaw_Parameter_parent_create_model()
{
Model m = new Model(2,4);
Reaction r = m.createReaction();
KineticLaw kl = m.createKineticLaw();
Parameter p = m.createKineticLawParameter();
assertTrue( kl.getNumParameters() == 1 );
ListOfParameters lop = kl.getListOfParameters();
assertTrue( r == kl.getParentSBMLObject() );
assertTrue( kl == lop.getParentSBMLObject() );
assertTrue( lop == p.getParentSBMLObject() );
assertTrue( lop == kl.getParameter(0).getParentSBMLObject() );
kl = null;
}
public void test_Model_createKineticLawParameters()
{
Model m = new Model(2,2);
Reaction r = m.createReaction();
KineticLaw kl = m.createKineticLaw();
Parameter p = m.createKineticLawParameter();
assertTrue( r.isSetKineticLaw() == true );
assertTrue( kl.getNumParameters() == 1 );
assertTrue( (p).getLevel() == 2 );
assertTrue( (p).getVersion() == 2 );
m = null;
}
public void test_KineticLaw_Parameter_ancestor_create_model()
{
Model m = new Model(2,4);
Reaction r = m.createReaction();
KineticLaw kl = m.createKineticLaw();
Parameter p = m.createKineticLawParameter();
assertTrue( kl.getNumParameters() == 1 );
ListOfParameters lop = kl.getListOfParameters();
assertTrue( p.getAncestorOfType(libsbml.SBML_KINETIC_LAW) == kl );
assertTrue( p.getAncestorOfType(libsbml.SBML_LIST_OF) == lop );
assertTrue( p.getAncestorOfType(libsbml.SBML_REACTION) == r );
assertTrue( p.getAncestorOfType(libsbml.SBML_MODEL) == m );
assertTrue( p.getAncestorOfType(libsbml.SBML_DOCUMENT) == null );
assertTrue( p.getAncestorOfType(libsbml.SBML_COMPARTMENT) == null );
Parameter obj = kl.getParameter(0);
assertTrue( obj.getAncestorOfType(libsbml.SBML_KINETIC_LAW) == kl );
assertTrue( obj.getAncestorOfType(libsbml.SBML_LIST_OF) == lop );
assertTrue( obj.getAncestorOfType(libsbml.SBML_REACTION) == r );
assertTrue( obj.getAncestorOfType(libsbml.SBML_MODEL) == m );
assertTrue( obj.getAncestorOfType(libsbml.SBML_DOCUMENT) == null );
assertTrue( obj.getAncestorOfType(libsbml.SBML_COMPARTMENT) == null );
kl = null;
}
public void test_Model_createKineticLaw()
{
Model m = new Model(2,2);
Reaction p = m.createReaction();
KineticLaw kl = m.createKineticLaw();
assertTrue( p.isSetKineticLaw() == true );
assertTrue( (kl).getLevel() == 2 );
assertTrue( (kl).getVersion() == 2 );
m = null;
}