CellBasedParabolicPdeSolver.cpp

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*/

#include "CellBasedParabolicPdeSolver.hpp"

template<unsigned DIM>
CellBasedParabolicPdeSolver<DIM>::CellBasedParabolicPdeSolver(TetrahedralMesh<DIM,DIM>* pMesh,
                              AbstractLinearParabolicPde<DIM,DIM>* pPde,
                              BoundaryConditionsContainer<DIM,DIM,1>* pBoundaryConditions)
     : SimpleLinearParabolicSolver<DIM, DIM>(pMesh, pPde, pBoundaryConditions)
{
}

template<unsigned DIM>
CellBasedParabolicPdeSolver<DIM>::~CellBasedParabolicPdeSolver()
{
}

template<unsigned DIM>
c_vector<double, 1*(DIM+1)> CellBasedParabolicPdeSolver<DIM>::ComputeVectorTerm(
        c_vector<double, DIM+1>& rPhi,
        c_matrix<double, DIM, DIM+1>& rGradPhi,
        ChastePoint<DIM>& rX,
        c_vector<double, 1>& rU,
        c_matrix<double, 1, DIM>& rGradU /* not used */,
        Element<DIM, DIM>* pElement)
{
  return (mInterpolatedSourceTerm
        + PdeSimulationTime::GetPdeTimeStepInverse() * this->mpParabolicPde->ComputeDuDtCoefficientFunction(rX) * rU(0)) * rPhi;
}

template<unsigned DIM>
c_matrix<double, 1*(DIM+1), 1*(DIM+1)> CellBasedParabolicPdeSolver<DIM>::ComputeMatrixTerm(
        c_vector<double, DIM+1>& rPhi,
        c_matrix<double, DIM, DIM+1>& rGradPhi,
        ChastePoint<DIM>& rX,
        c_vector<double, 1>& rU,
        c_matrix<double, 1, DIM>& rGradU,
        Element<DIM, DIM>* pElement)
{

     c_matrix<double, DIM, DIM> pde_diffusion_term = this->mpParabolicPde->ComputeDiffusionTerm(rX, pElement);

     return    prod( trans(rGradPhi), c_matrix<double, DIM, DIM+1>(prod(pde_diffusion_term, rGradPhi)) )
                + PdeSimulationTime::GetPdeTimeStepInverse() * this->mpParabolicPde->ComputeDuDtCoefficientFunction(rX) * outer_prod(rPhi, rPhi);
}

template<unsigned DIM>
void CellBasedParabolicPdeSolver<DIM>::ResetInterpolatedQuantities()
{
    mInterpolatedSourceTerm = 0;
}

template<unsigned DIM>
void CellBasedParabolicPdeSolver<DIM>::IncrementInterpolatedQuantities(double phiI, const Node<DIM>* pNode)
{
    unsigned index_of_unknown = 0;
    double u_at_node = this->GetCurrentSolutionOrGuessValue(pNode->GetIndex(), index_of_unknown);

    mInterpolatedSourceTerm += phiI*this->mpParabolicPde->ComputeSourceTermAtNode(*pNode,u_at_node);
}

// Explicit instantiation
template class CellBasedParabolicPdeSolver<1>;
template class CellBasedParabolicPdeSolver<2>;
template class CellBasedParabolicPdeSolver<3>;