ExtendedBidomainNeumannSurfaceTermAssembler.hpp

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#ifndef EXTENDEDBIDOMAINNEUMANNSURFACETERMASSEMBLER_HPP_
#define EXTENDEDBIDOMAINNEUMANNSURFACETERMASSEMBLER_HPP_
 
#include "AbstractFeSurfaceIntegralAssembler.hpp"
 
 
template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
class ExtendedBidomainNeumannSurfaceTermAssembler : public AbstractFeSurfaceIntegralAssembler<ELEMENT_DIM,SPACE_DIM,3>
{
protected:
    virtual c_vector<double, 3*ELEMENT_DIM> ComputeVectorSurfaceTerm(
        const BoundaryElement<ELEMENT_DIM-1,SPACE_DIM> &rSurfaceElement,
        c_vector<double,ELEMENT_DIM> &rPhi,
        ChastePoint<SPACE_DIM> &rX);
 
public:
    ExtendedBidomainNeumannSurfaceTermAssembler(AbstractTetrahedralMesh<ELEMENT_DIM,SPACE_DIM>* pMesh,
                                        BoundaryConditionsContainer<ELEMENT_DIM,SPACE_DIM,3>* pBoundaryConditions)
        : AbstractFeSurfaceIntegralAssembler<ELEMENT_DIM,SPACE_DIM,3>(pMesh, pBoundaryConditions)
    {
    }
};
 
 
// LCOV_EXCL_START //no non-zero Neumann BC allowed at the moment in extended bidomain problems
template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
c_vector<double, 3*ELEMENT_DIM> ExtendedBidomainNeumannSurfaceTermAssembler<ELEMENT_DIM,SPACE_DIM>::ComputeVectorSurfaceTerm(
    const BoundaryElement<ELEMENT_DIM-1,SPACE_DIM> &rSurfaceElement,
    c_vector<double,ELEMENT_DIM> &rPhi,
    ChastePoint<SPACE_DIM> &rX)
{
    // D_times_gradu_dot_n = [D grad(u)].n, D=diffusion matrix
    double sigma_i_times_grad_phi_i_first_cell_dot_n = this->mpBoundaryConditions->GetNeumannBCValue(&rSurfaceElement, rX, 0);
    double sigma_i_times_grad_phi_i_second_cell_dot_n = this->mpBoundaryConditions->GetNeumannBCValue(&rSurfaceElement, rX, 1);
    double sigma_e_times_grad_phi_e_dot_n = this->mpBoundaryConditions->GetNeumannBCValue(&rSurfaceElement, rX, 2);
 
    c_vector<double, 3*ELEMENT_DIM> ret;
 
//    for (unsigned i=0; i<3*ELEMENT_DIM; i = i + 3)
//    {
//        ret(i) = rPhi(i)*sigma_i_times_grad_phi_i_first_cell_dot_n;
//        ret(i+1) = rPhi(i)*sigma_i_times_grad_phi_i_second_cell_dot_n;
//        ret(i+2) = rPhi(i)*(sigma_i_times_grad_phi_i_first_cell_dot_n + sigma_i_times_grad_phi_i_second_cell_dot_n + sigma_e_times_grad_phi_e_dot_n);
//    }
    for (unsigned i=0; i<ELEMENT_DIM; i++)
    {
        ret(3*i) = rPhi(i)*sigma_i_times_grad_phi_i_first_cell_dot_n;
        ret(3*i+1) = rPhi(i)*sigma_i_times_grad_phi_i_second_cell_dot_n;
        ret(3*i+2) = rPhi(i)*(sigma_i_times_grad_phi_i_first_cell_dot_n + sigma_i_times_grad_phi_i_second_cell_dot_n + sigma_e_times_grad_phi_e_dot_n);
    }
    return ret;
}
// LCOV_EXCL_STOP
 
#endif // EXTENDEDBIDOMAINNEUMANNSURFACETERMASSEMBLER_HPP_