public FormulaParser(Reader.SBMLReader reader, String formula, Model model)
{
this.formula = formula;
this.reader = reader;
this.model = model;
model.InterrogateModelForMissingIDs();
// Init the collection list
this.formulaSpecies = new List<Species>();
this.formulaParameters = new List<Parameter>();
this.formulaUnknownEntities = new List<UnknownEntity>();
// Init the operators
this.init();
this.formulaTree = this.makeFormulaTree(formula, false);
}
/// <summary>
/// Constructor that includes an experiment and simulation reference which is used for formulas with aggregate functions
/// that use references to cell definitions, groups and species
/// </summary>
/// <param name="reader">
/// A <see cref="Reader.SBMLReader"/>
/// </param>
/// <param name="formula">
/// A <see cref="String"/>
/// </param>
/// <param name="model">
/// A <see cref="Model"/>
/// </param>
/// <param name="experiment">
/// A <see cref="Experiment"/>
/// </param>
/// <param name="simulation">
/// A <see cref="Simulation"/>
/// </param>
public FormulaParser(Reader.SBMLReader reader, String formula, Model model, Experiment experiment, Simulation simulation)
{
this.formula = formula;
this.reader = reader;
model.InterrogateModelForMissingIDs();
//create model list
this.models = new List<Model>();
models.Add(model);
// Init the collection list
this.formulaSpecies = new List<Species>();
this.formulaParameters = new List<Parameter>();
this.formulaUnknownEntities = new List<UnknownEntity>();
// Init the operators
this.init();
this.experiment = experiment;
this.simulation = simulation;
this.formulaTree = this.makeFormulaTree(formula, true);
}
