ElectrodesStimulusFactory.hpp

/*

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*/

#ifndef ELECTRODESSTIMULSUFACTORY_HPP_
#define ELECTRODESSTIMULSUFACTORY_HPP_

#include <boost/shared_ptr.hpp>
#include "ChasteSerialization.hpp"
#include <boost/serialization/split_member.hpp>
#include <boost/serialization/shared_ptr.hpp>

#include "AbstractTetrahedralMesh.hpp"
#include "DistributedVector.hpp"
#include "AbstractChasteRegion.hpp"
#include "AbstractStimulusFactory.hpp"
#include "LinearBasisFunction.hpp"

template<unsigned DIM>
class ElectrodesStimulusFactory : public AbstractStimulusFactory<DIM>
{
protected:

    friend class TestStimulusFactory;//for testing

    std::vector<std::pair<AbstractChasteRegion<DIM>*, AbstractChasteRegion<DIM>*> >& mrElectrodePairs;

    std::vector<double>& mrMagnitudes;
    std::vector<double>& mrDurations;
    std::vector<double>& mrPeriods;
    std::vector<double>& mrStarts;
    std::vector<double>& mrEnds;

    std::vector<double> mMagnitudesElectrode1;

    std::vector<double> mMagnitudesElectrode2;


    bool mGroundSecondElectrode;

    void CheckForElectrodesIntersection();

    typedef LinearBasisFunction<DIM> BasisFunction;


    double ComputeElectrodeTotalFlux(AbstractChasteRegion<DIM>* pRegion, double stimulusMagnitude);


public:


    ElectrodesStimulusFactory(std::vector<std::pair<AbstractChasteRegion<DIM>*, AbstractChasteRegion<DIM>*> >& rElectrodePairs,
                              std::vector<double>& rStimulusMagnitudes,
                              std::vector<double>& rDurations,
                              std::vector<double>& rPeriods,
                              std::vector<double>& rStarts,
                              std::vector<double>& rEnds);

    boost::shared_ptr<AbstractStimulusFunction> CreateStimulusForNode(unsigned nodeIndex);

    ~ElectrodesStimulusFactory();

    void SetCompatibleExtracellularStimulus();

    void GroundSecondElectrode(bool grounded);

};

#endif /*ELECTRODESSTIMULSUFACTORY_HPP_*/