Goldbeter1991SrnModel.cpp

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#include "Goldbeter1991SrnModel.hpp"
 
Goldbeter1991SrnModel::Goldbeter1991SrnModel(boost::shared_ptr<AbstractCellCycleModelOdeSolver> pOdeSolver)
    : AbstractOdeSrnModel(3, pOdeSolver)
{
    if (mpOdeSolver == boost::shared_ptr<AbstractCellCycleModelOdeSolver>())
    {
        mpOdeSolver = CellCycleModelOdeSolver<Goldbeter1991SrnModel, RungeKutta4IvpOdeSolver>::Instance();
        mpOdeSolver->Initialise();
        SetDt(0.1);
    }
    assert(mpOdeSolver->IsSetUp());
}
 
 
Goldbeter1991SrnModel::Goldbeter1991SrnModel(const Goldbeter1991SrnModel& rModel)
    : AbstractOdeSrnModel(rModel)
{
    /*
     * Set each member variable of the new SRN model that inherits
     * its value from the parent.
     *
     * Note 1: some of the new SRN model's member variables
     * will already have been correctly initialized in its constructor.
     *
     * Note 2: one or more of the new SRN model's member variables
     * may be set/overwritten as soon as InitialiseDaughterCell() is called on
     * the new SRN model.
     *
     * Note 3: Only set the variables defined in this class. Variables defined
     * in parent classes will be defined there.
     */
 
    assert(rModel.GetOdeSystem());
    SetOdeSystem(new Goldbeter1991OdeSystem(rModel.GetOdeSystem()->rGetStateVariables()));
}
 
AbstractSrnModel* Goldbeter1991SrnModel::CreateSrnModel()
{
    return new Goldbeter1991SrnModel(*this);
}
 
void Goldbeter1991SrnModel::SimulateToCurrentTime()
{
    // Custom behaviour: run the ODE simulation as needed
    AbstractOdeSrnModel::SimulateToCurrentTime();
}
 
void Goldbeter1991SrnModel::Initialise()
{
    AbstractOdeSrnModel::Initialise(new Goldbeter1991OdeSystem);
}
 
void Goldbeter1991SrnModel::OutputSrnModelParameters(out_stream& rParamsFile)
{
    // No new parameters to output, so just call method on direct parent class
    AbstractOdeSrnModel::OutputSrnModelParameters(rParamsFile);
}
 
double Goldbeter1991SrnModel::GetC()
{
    assert(mpOdeSystem != nullptr);
    double val = mpOdeSystem->rGetStateVariables()[0];
    return val;
}
 
double Goldbeter1991SrnModel::GetM()
{
    assert(mpOdeSystem != nullptr);
    double val = mpOdeSystem->rGetStateVariables()[1];
    return val;
}
 
double Goldbeter1991SrnModel::GetX()
{
    assert(mpOdeSystem != nullptr);
    double val = mpOdeSystem->rGetStateVariables()[2];
    return val;
}
 
// Declare identifier for the serializer
#include "SerializationExportWrapperForCpp.hpp"
CHASTE_CLASS_EXPORT(Goldbeter1991SrnModel)
#include "CellCycleModelOdeSolverExportWrapper.hpp"
EXPORT_CELL_CYCLE_MODEL_ODE_SOLVER(Goldbeter1991SrnModel)