BidomainWithBathAssembler< ELEMENT_DIM, SPACE_DIM > Class Template Reference

#include <BidomainWithBathAssembler.hpp>

Inheritance diagram for BidomainWithBathAssembler< ELEMENT_DIM, SPACE_DIM >:

Collaboration diagram for BidomainWithBathAssembler< ELEMENT_DIM, SPACE_DIM >:

Public Member Functions
	BidomainWithBathAssembler (AbstractTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > *pMesh, BidomainTissue< SPACE_DIM > *pTissue)
virtual	~BidomainWithBathAssembler ()
Public Member Functions inherited from BidomainAssembler< ELEMENT_DIM, SPACE_DIM >
	BidomainAssembler (AbstractTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > *pMesh, BidomainTissue< SPACE_DIM > *pTissue)
virtual	~BidomainAssembler ()
Public Member Functions inherited from AbstractCardiacFeVolumeIntegralAssembler< ELEMENT_DIM, SPACE_DIM, 2, false, true, CARDIAC >
	AbstractCardiacFeVolumeIntegralAssembler (AbstractTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > *pMesh, AbstractCardiacTissue< ELEMENT_DIM, SPACE_DIM > *pTissue)
Public Member Functions inherited from AbstractFeVolumeIntegralAssembler< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM, CAN_ASSEMBLE_VECTOR, CAN_ASSEMBLE_MATRIX, INTERPOLATION_LEVEL >
	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
virtual c_matrix< double, 2 *(ELEMENT_DIM+1), 2 *(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, 2 > &rU, c_matrix< double, 2, SPACE_DIM > &rGradU, Element< ELEMENT_DIM, SPACE_DIM > *pElement)
Protected Member Functions inherited from AbstractFeVolumeIntegralAssembler< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM, CAN_ASSEMBLE_VECTOR, CAN_ASSEMBLE_MATRIX, INTERPOLATION_LEVEL >
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< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM, CAN_ASSEMBLE_VECTOR, CAN_ASSEMBLE_MATRIX, INTERPOLATION_LEVEL >
typedef LinearBasisFunction < ELEMENT_DIM >	BasisFunction
Protected Attributes inherited from AbstractCardiacFeVolumeIntegralAssembler< ELEMENT_DIM, SPACE_DIM, 2, false, true, CARDIAC >
AbstractCardiacTissue < ELEMENT_DIM, SPACE_DIM > *	mpCardiacTissue
HeartConfig *	mpConfig
Protected Attributes inherited from AbstractFeVolumeIntegralAssembler< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM, CAN_ASSEMBLE_VECTOR, CAN_ASSEMBLE_MATRIX, INTERPOLATION_LEVEL >
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 ELEMENT_DIM, unsigned SPACE_DIM>
class BidomainWithBathAssembler< ELEMENT_DIM, SPACE_DIM >

Assembler for assembling the LHS matrix system solved in bidomain problems with a perfusing bath. See FEM implementations document for the exact definition of this.

Definition at line 50 of file BidomainWithBathAssembler.hpp.

Constructor & Destructor Documentation

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>

BidomainWithBathAssembler< ELEMENT_DIM, SPACE_DIM >::BidomainWithBathAssembler ( AbstractTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > *  pMesh, BidomainTissue< SPACE_DIM > *  pTissue  )

inline

Constructor.

Parameters

pMesh	pointer to the mesh
pTissue	pointer to the tissue

Definition at line 80 of file BidomainWithBathAssembler.hpp.

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>

virtual BidomainWithBathAssembler< ELEMENT_DIM, SPACE_DIM >::~BidomainWithBathAssembler ( )

inlinevirtual

Destructor.

Definition at line 89 of file BidomainWithBathAssembler.hpp.

Member Function Documentation

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>

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

protectedvirtual

Overloaded ComputeMatrixTerm() - calls the base class version for tissue elements.

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

Reimplemented from BidomainAssembler< ELEMENT_DIM, SPACE_DIM >.

Definition at line 41 of file BidomainWithBathAssembler.cpp.

References BidomainAssembler< ELEMENT_DIM, SPACE_DIM >::ComputeMatrixTerm(), HeartConfig::GetBathConductivity(), AbstractElement< ELEMENT_DIM, SPACE_DIM >::GetUnsignedAttribute(), HeartConfig::Instance(), and HeartRegionCode::IsRegionBath().

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

• heart/src/solver/electrics/bidomain/BidomainWithBathAssembler.hpp
• heart/src/solver/electrics/bidomain/BidomainWithBathAssembler.cpp