AbstractExtendedBidomainSolver.hpp

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*/


#ifndef ABSTRACTEXTENDEDBIDOMAINSOLVER_HPP_
#define ABSTRACTEXTENDEDBIDOMAINSOLVER_HPP_

#include "AbstractDynamicLinearPdeSolver.hpp"
#include "ExtendedBidomainTissue.hpp"
#include "HeartConfig.hpp"
#include "ExtendedBidomainAssembler.hpp"

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
class AbstractExtendedBidomainSolver
    : public AbstractDynamicLinearPdeSolver<ELEMENT_DIM,SPACE_DIM,3>
{

protected:

    bool mBathSimulation;


    ExtendedBidomainTissue<SPACE_DIM>* mpExtendedBidomainTissue;

    BoundaryConditionsContainer<ELEMENT_DIM,SPACE_DIM,3>* mpBoundaryConditions;

    ExtendedBidomainAssembler<ELEMENT_DIM,SPACE_DIM>* mpExtendedBidomainAssembler;

    HeartConfig* mpConfig;

    bool mNullSpaceCreated;

    std::vector<unsigned> mFixedExtracellularPotentialNodes;

     unsigned mRowForAverageOfPhiZeroed;


    void InitialiseForSolve(Vec initialSolution);


    virtual void CheckCompatibilityCondition();


    void PrepareForSetupLinearSystem(Vec existingSolution);

    virtual void FinaliseLinearSystem(Vec existingSolution);


    virtual Vec GenerateNullBasis() const;

public:

    AbstractExtendedBidomainSolver(bool bathSimulation,
                         AbstractTetrahedralMesh<ELEMENT_DIM,SPACE_DIM>* pMesh,
                         ExtendedBidomainTissue<SPACE_DIM>* pTissue,
                         BoundaryConditionsContainer<ELEMENT_DIM, SPACE_DIM, 3>* pBcc);

    virtual ~AbstractExtendedBidomainSolver();

    void SetFixedExtracellularPotentialNodes(std::vector<unsigned> fixedExtracellularPotentialNodes);

     void SetRowForAverageOfPhiZeroed(unsigned rowMeanPhiEZero);

     BoundaryConditionsContainer<ELEMENT_DIM,SPACE_DIM,3>* GetBoundaryConditions()
     {
         return mpBoundaryConditions;
     }

};

#endif /*ABSTRACTEXTENDEDBIDOMAINSOLVER_HPP_*/