VanLeeuwen2009WntSwatCellCycleModelHypothesisOne.cpp

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*/

#include "VanLeeuwen2009WntSwatCellCycleModelHypothesisOne.hpp"

VanLeeuwen2009WntSwatCellCycleModelHypothesisOne::VanLeeuwen2009WntSwatCellCycleModelHypothesisOne(boost::shared_ptr<AbstractCellCycleModelOdeSolver> pOdeSolver)
    : AbstractVanLeeuwen2009WntSwatCellCycleModel(pOdeSolver)
{
    if (mpOdeSolver == boost::shared_ptr<AbstractCellCycleModelOdeSolver>())
    {
#ifdef CHASTE_CVODE
        mpOdeSolver = CellCycleModelOdeSolver<VanLeeuwen2009WntSwatCellCycleModelHypothesisOne, CvodeAdaptor>::Instance();
        mpOdeSolver->Initialise();
        // Chaste solvers always check for stopping events, CVODE needs to be instructed to do so
        mpOdeSolver->CheckForStoppingEvents();
        mpOdeSolver->SetMaxSteps(10000);
#else
        mpOdeSolver = CellCycleModelOdeSolver<VanLeeuwen2009WntSwatCellCycleModelHypothesisOne, RungeKutta4IvpOdeSolver>::Instance();
        mpOdeSolver->Initialise();
        SetDt(0.00005);
#endif //CHASTE_CVODE
    }
}

VanLeeuwen2009WntSwatCellCycleModelHypothesisOne::VanLeeuwen2009WntSwatCellCycleModelHypothesisOne(const VanLeeuwen2009WntSwatCellCycleModelHypothesisOne& rModel)
   : AbstractVanLeeuwen2009WntSwatCellCycleModel(rModel)
{
    /*
     * Initialize only those member variables defined in this class.
     * Create the new cell-cycle model's ODE system and use the current
     * values of the state variables in mpOdeSystem as an initial condition.
     *
     * The member variables mCurrentCellCyclePhase, mG1Duration,
     * mMinimumGapDuration, mStemCellG1Duration, mTransitCellG1Duration,
     * mSDuration, mG2Duration and mMDuration are initialized in the
     * AbstractPhaseBasedCellCycleModel constructor.
     *
     * The member variables mBirthTime, mReadyToDivide and mDimension
     * are initialized in the AbstractCellCycleModel constructor.
     */
    assert(rModel.GetOdeSystem());
    double wnt_level = rModel.GetWntLevel();
    InitialiseOdeSystem(wnt_level, rModel.mpCell->GetMutationState());
    SetStateVariables(rModel.GetOdeSystem()->rGetStateVariables());
}

void VanLeeuwen2009WntSwatCellCycleModelHypothesisOne::InitialiseOdeSystem(double wntConcentration, boost::shared_ptr<AbstractCellMutationState> pMutationState)
{
    mpOdeSystem = new VanLeeuwen2009WntSwatCellCycleOdeSystem(1, wntConcentration, pMutationState);
}

AbstractCellCycleModel* VanLeeuwen2009WntSwatCellCycleModelHypothesisOne::CreateCellCycleModel()
{
    return new VanLeeuwen2009WntSwatCellCycleModelHypothesisOne(*this);
}

void VanLeeuwen2009WntSwatCellCycleModelHypothesisOne::OutputCellCycleModelParameters(out_stream& rParamsFile)
{
    // No new parameters to output, so just call method on direct parent class
    AbstractVanLeeuwen2009WntSwatCellCycleModel::OutputCellCycleModelParameters(rParamsFile);
}

// Declare identifier for the serializer
#include "SerializationExportWrapperForCpp.hpp"
CHASTE_CLASS_EXPORT(VanLeeuwen2009WntSwatCellCycleModelHypothesisOne)
#include "CellCycleModelOdeSolverExportWrapper.hpp"
EXPORT_CELL_CYCLE_MODEL_ODE_SOLVER(VanLeeuwen2009WntSwatCellCycleModelHypothesisOne)