AbstractRushLarsenCardiacCell.hpp

/*

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*/

#ifndef ABSTRACTRUSHLARSENCARDIACCELL_HPP_
#define ABSTRACTRUSHLARSENCARDIACCELL_HPP_

#include "ChasteSerialization.hpp"
#include <boost/serialization/base_object.hpp>
#include "ClassIsAbstract.hpp"

#include "AbstractCardiacCell.hpp"
#include "PetscTools.hpp"

class AbstractRushLarsenCardiacCell : public AbstractCardiacCell
{
private:
    friend class boost::serialization::access;
    template<class Archive>
    void serialize(Archive & archive, const unsigned int version)
    {
        // This calls serialize on the base class.
        archive & boost::serialization::base_object<AbstractCardiacCell>(*this);
    }

public:
    AbstractRushLarsenCardiacCell(
        unsigned numberOfStateVariables,
        unsigned voltageIndex,
        boost::shared_ptr<AbstractStimulusFunction> pIntracellularStimulus);

    virtual ~AbstractRushLarsenCardiacCell();

    OdeSolution Compute(double tStart, double tEnd, double tSamp=0.0);

    void ComputeExceptVoltage(double tStart, double tEnd);

    void SolveAndUpdateState(double tStart, double tEnd);

private:
#define COVERAGE_IGNORE

    void EvaluateYDerivatives(double time, const std::vector<double> &rY, std::vector<double> &rDY)
    {
        NEVER_REACHED;
    }
#undef COVERAGE_IGNORE

protected:
    virtual void ComputeOneStepExceptVoltage(const std::vector<double> &rDY,
                                             const std::vector<double> &rAlphaOrTau,
                                             const std::vector<double> &rBetaOrInf)=0;

    void UpdateTransmembranePotential(const std::vector<double> &rDY);

    virtual void EvaluateEquations(double time,
                                   std::vector<double> &rDY,
                                   std::vector<double> &rAlphaOrTau,
                                   std::vector<double> &rBetaOrInf)=0;
};

CLASS_IS_ABSTRACT(AbstractRushLarsenCardiacCell)

#endif // ABSTRACTRUSHLARSENCARDIACCELL_HPP_