Goldbeter1991SrnModel.cpp

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#include "Goldbeter1991SrnModel.hpp"
#include "AbstractOdeSrnModel.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());
}

AbstractSrnModel* Goldbeter1991SrnModel::CreateSrnModel()
{
    // Create a new cell-cycle model
    Goldbeter1991SrnModel* p_model = new Goldbeter1991SrnModel(this->mpOdeSolver);

    // Create the new SRN model's ODE system
    p_model->SetOdeSystem(new Goldbeter1991OdeSystem);

    // call super to set current values of the state variables in mpOdeSystem as an initial condition for the new srn model's ODE system
    return AbstractOdeSrnModel::CreateSrnModel(p_model);
}

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 != NULL);
    double val = mpOdeSystem->rGetStateVariables()[0];
    return val;
}

double Goldbeter1991SrnModel::GetM()
{
    assert(mpOdeSystem != NULL);
    double val = mpOdeSystem->rGetStateVariables()[1];
    return val;
}

double Goldbeter1991SrnModel::GetX()
{
    assert(mpOdeSystem != NULL);
    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)