#include <BidomainMassMatrixAssembler.hpp>

Inheritance diagram for BidomainMassMatrixAssembler< DIM >:

Collaboration diagram for BidomainMassMatrixAssembler< DIM >:

Public Member Functions
	BidomainMassMatrixAssembler (AbstractTetrahedralMesh< DIM, DIM > *pMesh)

	~BidomainMassMatrixAssembler ()

Public Member Functions inherited from AbstractFeVolumeIntegralAssembler< DIM, DIM, 2, false, true, CARDIAC >
	AbstractFeVolumeIntegralAssembler (AbstractTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > *pMesh)

virtual	~AbstractFeVolumeIntegralAssembler ()

Public Member Functions inherited from AbstractFeAssemblerCommon< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM, CAN_ASSEMBLE_VECTOR, CAN_ASSEMBLE_MATRIX, INTERPOLATION_LEVEL >
	AbstractFeAssemblerCommon ()

void	SetCurrentSolution (Vec currentSolution)

virtual	~AbstractFeAssemblerCommon ()

Public Member Functions inherited from AbstractFeAssemblerInterface< CAN_ASSEMBLE_VECTOR, CAN_ASSEMBLE_MATRIX >
	AbstractFeAssemblerInterface ()

void	SetMatrixToAssemble (Mat &rMatToAssemble, bool zeroMatrixBeforeAssembly=true)

void	SetVectorToAssemble (Vec &rVecToAssemble, bool zeroVectorBeforeAssembly)

void	Assemble ()

void	AssembleMatrix ()

void	AssembleVector ()

virtual	~AbstractFeAssemblerInterface ()

Protected Member Functions
c_matrix< double, 2 (DIM+1), 2 (DIM+1)>	ComputeMatrixTerm (c_vector< double, DIM+1 > &rPhi, c_matrix< double, DIM, DIM+1 > &rGradPhi, ChastePoint< DIM > &rX, c_vector< double, 2 > &rU, c_matrix< double, 2, DIM > &rGradU, Element< DIM, DIM > *pElement)

Protected Member Functions inherited from AbstractFeVolumeIntegralAssembler< DIM, DIM, 2, false, true, CARDIAC >
void	ComputeTransformedBasisFunctionDerivatives (const ChastePoint< ELEMENT_DIM > &rPoint, const c_matrix< double, ELEMENT_DIM, SPACE_DIM > &rInverseJacobian, c_matrix< double, SPACE_DIM, ELEMENT_DIM+1 > &rReturnValue)

void	DoAssemble ()

virtual c_matrix< double, PROBLEM_DIM (ELEMENT_DIM+1), PROBLEM_DIM (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, PROBLEM_DIM > &rU, c_matrix< double, PROBLEM_DIM, SPACE_DIM > &rGradU, Element< ELEMENT_DIM, SPACE_DIM > *pElement)

virtual c_vector< double, PROBLEM_DIM *(ELEMENT_DIM+1)>	ComputeVectorTerm (c_vector< double, ELEMENT_DIM+1 > &rPhi, c_matrix< double, SPACE_DIM, ELEMENT_DIM+1 > &rGradPhi, ChastePoint< SPACE_DIM > &rX, c_vector< double, PROBLEM_DIM > &rU, c_matrix< double, PROBLEM_DIM, SPACE_DIM > &rGradU, Element< ELEMENT_DIM, SPACE_DIM > *pElement)

virtual void	AssembleOnElement (Element< ELEMENT_DIM, SPACE_DIM > &rElement, c_matrix< double, PROBLEM_DIM (ELEMENT_DIM+1), PROBLEM_DIM (ELEMENT_DIM+1) > &rAElem, c_vector< double, PROBLEM_DIM *(ELEMENT_DIM+1)> &rBElem)

virtual bool	ElementAssemblyCriterion (Element< ELEMENT_DIM, SPACE_DIM > &rElement)

Protected Member Functions inherited from AbstractFeAssemblerCommon< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM, CAN_ASSEMBLE_VECTOR, CAN_ASSEMBLE_MATRIX, INTERPOLATION_LEVEL >
virtual double	GetCurrentSolutionOrGuessValue (unsigned nodeIndex, unsigned indexOfUnknown)

virtual void	ResetInterpolatedQuantities ()

virtual void	IncrementInterpolatedQuantities (double phiI, const Node< SPACE_DIM > *pNode)

virtual void	IncrementInterpolatedGradientQuantities (const c_matrix< double, SPACE_DIM, ELEMENT_DIM+1 > &rGradPhi, unsigned phiIndex, const Node< SPACE_DIM > *pNode)

Additional Inherited Members
Protected Types inherited from AbstractFeVolumeIntegralAssembler< DIM, DIM, 2, false, true, CARDIAC >
typedef LinearBasisFunction < ELEMENT_DIM >	BasisFunction

Protected Attributes inherited from AbstractFeVolumeIntegralAssembler< DIM, DIM, 2, false, true, CARDIAC >
AbstractTetrahedralMesh < ELEMENT_DIM, SPACE_DIM > *	mpMesh

GaussianQuadratureRule < ELEMENT_DIM > *	mpQuadRule

Protected Attributes inherited from AbstractFeAssemblerCommon< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM, CAN_ASSEMBLE_VECTOR, CAN_ASSEMBLE_MATRIX, INTERPOLATION_LEVEL >
ReplicatableVector	mCurrentSolutionOrGuessReplicated

Protected Attributes inherited from AbstractFeAssemblerInterface< CAN_ASSEMBLE_VECTOR, CAN_ASSEMBLE_MATRIX >
Vec	mVectorToAssemble

Mat	mMatrixToAssemble

bool	mAssembleMatrix

bool	mAssembleVector

bool	mZeroMatrixBeforeAssembly

bool	mZeroVectorBeforeAssembly

PetscInt	mOwnershipRangeLo

PetscInt	mOwnershipRangeHi

Detailed Description

template<unsigned DIM>
class BidomainMassMatrixAssembler< DIM >

Constructs a matrix with the mass matrix in the voltage-voltage block.

Ie. IF the bidomain unknowns were ordered [V1,..,Vn,phie_1,..,phie_n], the matrix would be, in block form

[ M 0 ] [ 0 0 ]

where M is the standard nxn mass matrix.

Since the bidomain ordering is not [V1,..,Vn,phie_1,..,phie_n] but [V1,phie1,..,Vn,phie_n], the matrix has a different form.

WORKS FOR BATH PROBLEMS AS WELL AS NON-BATH PROBLEMS (sets zeros in the voltage-voltage block for bath nodes, ie [ M 0 0 0 ] [ 0 0 0 0 ] [ 0 0 0 0 ] [ 0 0 0 0 ] where the ordering is Vtissue, Vbath, phi_tissue, phi_bath

Definition at line 66 of file BidomainMassMatrixAssembler.hpp.

Constructor & Destructor Documentation

template<unsigned DIM>

BidomainMassMatrixAssembler< DIM >::BidomainMassMatrixAssembler ( AbstractTetrahedralMesh< DIM, DIM > * pMesh )

inline

Constructor

Parameters

pMesh pointer to the mesh

Definition at line 100 of file BidomainMassMatrixAssembler.hpp.

template<unsigned DIM>

BidomainMassMatrixAssembler< DIM >::~BidomainMassMatrixAssembler ( )

inline

Destructor.

Definition at line 108 of file BidomainMassMatrixAssembler.hpp.

Member Function Documentation

template<unsigned DIM>

c_matrix< double, 2 (DIM+1), 2 (DIM+1)> BidomainMassMatrixAssembler< DIM >::ComputeMatrixTerm	(	c_vector< double, DIM+1 > &	rPhi,
		c_matrix< double, DIM, DIM+1 > &	rGradPhi,
		ChastePoint< DIM > &	rX,
		c_vector< double, 2 > &	rU,
		c_matrix< double, 2, DIM > &	rGradU,
		Element< DIM, DIM > *	pElement
	)

protected

ComputeMatrixTerm()

This method is called by AssembleOnElement() and tells the assembler the contribution to add to the element stiffness matrix.

Parameters

rPhi	The basis functions, rPhi(i) = phi_i, i=1..numBases
rGradPhi	Basis gradients, rGradPhi(i,j) = d(phi_j)/d(X_i)
rX	The point in space
rU	The unknown as a vector, u(i) = u_i
rGradU	The gradient of the unknown as a matrix, rGradU(i,j) = d(u_i)/d(X_j)
pElement	Pointer to the element

Returns: stencil matrix

Definition at line 42 of file BidomainMassMatrixAssembler.cpp.

References AbstractElement< ELEMENT_DIM, SPACE_DIM >::GetUnsignedAttribute(), and HeartRegionCode::IsRegionBath().

The documentation for this class was generated from the following files:

heart/src/solver/electrics/bidomain/BidomainMassMatrixAssembler.hpp
heart/src/solver/electrics/bidomain/BidomainMassMatrixAssembler.cpp

Public Member Functions

Protected Member Functions

Additional Inherited Members

Detailed Description

template<unsigned DIM> class BidomainMassMatrixAssembler< DIM >

Constructor & Destructor Documentation

Member Function Documentation

template<unsigned DIM>
class BidomainMassMatrixAssembler< DIM >