AbstractBidomainSolver.hpp

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*/
 
#ifndef ABSTRACTBIDOMAINSOLVER_HPP_
#define ABSTRACTBIDOMAINSOLVER_HPP_
 
#include "AbstractDynamicLinearPdeSolver.hpp"
#include "BidomainTissue.hpp"
#include "HeartConfig.hpp"
 
template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
class AbstractBidomainSolver : public AbstractDynamicLinearPdeSolver<ELEMENT_DIM,SPACE_DIM,2>
{
protected:
    bool mBathSimulation;
 
    BidomainTissue<SPACE_DIM>* mpBidomainTissue;
 
    BoundaryConditionsContainer<ELEMENT_DIM,SPACE_DIM,2>* mpBoundaryConditions;
 
    bool mNullSpaceCreated;
 
    HeartConfig* mpConfig;
 
    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;
 
    void FinaliseForBath(bool computeMatrix, bool computeVector);
 
public:
    AbstractBidomainSolver(bool bathSimulation,
                           AbstractTetrahedralMesh<ELEMENT_DIM,SPACE_DIM>* pMesh,
                           BidomainTissue<SPACE_DIM>* pTissue,
                           BoundaryConditionsContainer<ELEMENT_DIM,SPACE_DIM,2>* pBoundaryConditions);
 
    virtual ~AbstractBidomainSolver();
 
    void SetFixedExtracellularPotentialNodes(std::vector<unsigned> fixedExtracellularPotentialNodes);
 
     void SetRowForAverageOfPhiZeroed(unsigned rowMeanPhiEZero);
 
    BoundaryConditionsContainer<ELEMENT_DIM,SPACE_DIM,2>* GetBoundaryConditions()
    {
        return mpBoundaryConditions;
    }
 
    void ResetBoundaryConditionsContainer(BoundaryConditionsContainer<ELEMENT_DIM,SPACE_DIM,2>* pBcc)
    {
        assert(pBcc);
        mpBoundaryConditions = pBcc;
        // Note, in SetupLinearSystem()
        //   neumann_assembler->ResetBoundaryConditionsContainer(mpBcc)
        // MUST be called every timestep, in case the bcc was reset.
    }
};
 
#endif /*ABSTRACTBIDOMAINSOLVER_HPP_*/