protected override void Context()
{
base.Context();
_sbmlModel = new Model(3, 1);
_sbmlInformation = new SBMLInformation();
//one compartment reaction
_reaction = _sbmlModel.createReaction();
_reaction.setId("r1");
//reaction partner
var s1 = _sbmlModel.createSpecies();
s1.setId("s1");
s1.setCompartment("default");
var s2 = _sbmlModel.createSpecies();
s2.setId("s2");
s2.setCompartment("default");
var m = new MoleculeInformation(s1);
var m2 = new MoleculeInformation(s2);
_sbmlInformation.MoleculeInformation.Add(m);
_sbmlInformation.MoleculeInformation.Add(m2);
//SRef
var s1Ref = _reaction.createReactant();
s1Ref.setSpecies("s1");
s1Ref.setStoichiometry(1);
var s2Ref = _reaction.createProduct();
s2Ref.setSpecies("s2");
s2Ref.setStoichiometry(2);
_reaction.addProduct(s2Ref);
//Modifier
var mod = _reaction.createModifier();
mod.setId("mod");
mod.setName("mod");
mod.setSpecies("s1");
//Kinetic Law
var kl = _reaction.createKineticLaw();
kl.setId("kl");
kl.setMath(libsbml.parseFormula("2*3"));
}
public void test_Reaction_createReactant()
{
Reaction m = new Reaction(2,2);
SpeciesReference p = m.createReactant();
assertTrue( m.getNumReactants() == 1 );
assertTrue( (p).getLevel() == 2 );
assertTrue( (p).getVersion() == 2 );
m = null;
}
public void test_SpeciesReference_Reactant_ancestor_create()
{
Reaction r = new Reaction(2,4);
SpeciesReference sr = r.createReactant();
ListOf lo = r.getListOfReactants();
assertTrue( sr.getAncestorOfType(libsbml.SBML_REACTION) == r );
assertTrue( sr.getAncestorOfType(libsbml.SBML_LIST_OF) == lo );
assertTrue( sr.getAncestorOfType(libsbml.SBML_DOCUMENT) == null );
assertTrue( sr.getAncestorOfType(libsbml.SBML_COMPARTMENT) == null );
SpeciesReference obj = r.getReactant(0);
assertTrue( obj.getAncestorOfType(libsbml.SBML_REACTION) == r );
assertTrue( obj.getAncestorOfType(libsbml.SBML_LIST_OF) == lo );
assertTrue( obj.getAncestorOfType(libsbml.SBML_DOCUMENT) == null );
assertTrue( obj.getAncestorOfType(libsbml.SBML_COMPARTMENT) == null );
}
public void test_SpeciesReference_Reactant_parent_create()
{
Reaction r = new Reaction(2,4);
SpeciesReference sr = r.createReactant();
ListOf lo = r.getListOfReactants();
assertTrue( lo == r.getReactant(0).getParentSBMLObject() );
assertTrue( lo == sr.getParentSBMLObject() );
assertTrue( r == lo.getParentSBMLObject() );
}
public void test_Model_getSpeciesReferenceById()
{
Reaction r1 = new Reaction(2,4);
r1.setId( "r1");
SpeciesReference sr = r1.createReactant();
sr.setId( "s1");
M.addReaction(r1);
assertTrue( M.getNumReactions() == 1 );
assertNotEquals(M.getSpeciesReference( "s1" ),sr);
}