ExtendedBidomainAssembler.hpp

/*

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*/


#ifndef EXTENDEDBIDOMAINASSEMBLER_HPP_
#define EXTENDEDBIDOMAINASSEMBLER_HPP_

#include "UblasIncludes.hpp"

//#include <iostream>
#include <vector>
#include <petscvec.h>

#include "AbstractCardiacFeVolumeIntegralAssembler.hpp"

#include "ExtendedBidomainTissue.hpp"
#include "HeartConfig.hpp"
#include "Element.hpp"
#include "BoundaryElement.hpp"
#include "ChastePoint.hpp"
#include "AbstractTetrahedralMesh.hpp"
#include "BoundaryConditionsContainer.hpp"

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
class ExtendedBidomainAssembler
    : public AbstractCardiacFeVolumeIntegralAssembler<ELEMENT_DIM,SPACE_DIM,3,true,true,NORMAL>
{

protected:

    ExtendedBidomainTissue<SPACE_DIM>* mpExtendedBidomainTissue;

    HeartConfig* mpConfig;


    virtual c_matrix<double,3*(ELEMENT_DIM+1),3*(ELEMENT_DIM+1)> ComputeMatrixTerm(
        c_vector<double, ELEMENT_DIM+1> &rPhi,
        c_matrix<double, SPACE_DIM, ELEMENT_DIM+1> &rGradPhi,
        ChastePoint<SPACE_DIM> &rX,
        c_vector<double,3> &rU,
        c_matrix<double, 3, SPACE_DIM> &rGradU /* not used */,
        Element<ELEMENT_DIM,SPACE_DIM>* pElement);


public:

    ExtendedBidomainAssembler(AbstractTetrahedralMesh<ELEMENT_DIM,SPACE_DIM>* pMesh,
                            ExtendedBidomainTissue<SPACE_DIM>* pTissue,
                            unsigned numQuadPoints = 2);

    ~ExtendedBidomainAssembler();

};


#endif /*EXTENDEDBIDOMAINASSEMBLER_HPP_*/