BidomainAssembler< ELEMENT_DIM, SPACE_DIM > Class Template Reference

#include <BidomainAssembler.hpp>

Inherits AbstractCardiacFeVolumeIntegralAssembler< ELEMENT_DIM, SPACE_DIM, 2, false, true, CARDIAC >.

Inherited by BidomainWithBathAssembler< ELEMENT_DIM, SPACE_DIM >.

Collaboration diagram for BidomainAssembler< ELEMENT_DIM, SPACE_DIM >:

Public Member Functions
	BidomainAssembler (AbstractTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > pMesh, BidomainTissue< SPACE_DIM > pTissue, unsigned numQuadPoints=2)
	~BidomainAssembler ()
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 Attributes
HeartConfig *	mpConfig

Detailed Description

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
class BidomainAssembler< ELEMENT_DIM, SPACE_DIM >

Assembler, used for assembling the LHS matrix of the linear system that arises when the bidomain equations are discretised, and for assembling the contribution to the RHS vector that comes from a surface integral.

The discretised bidomain equation leads to the linear system (see FEM implementations document)

[ (chi*C/dt) M + K1 K1 ] [ V^{n+1} ] = [ (chi*C/dt) M V^{n} + M F^{n} + c1_surf ] [ K1 K2 ] [ PhiE^{n+1}] [ c2_surf ]

where chi is the surface-area to volume ratio, C the capacitance, dt the timestep M the mass matrix, K1 and K2 stiffness matrices, V^{n} and PhiE^{n} the vector of voltages and phi_e at time n, F^{n} the vector of (chi*Iionic + Istim) at each node, and c1_surf and c2_surf vectors arising from any surface stimuli (usually zero).

This assembler is used to assemble the LHS matrix, ie

[ (chi*C/dt) M + K1 K1 ] [ K1 K2 ]

Hence, this class inherits from AbstractCardiacFeVolumeIntegralAssembler and implements the methods ComputeMatrixTerm()

Definition at line 63 of file BidomainAssembler.hpp.

Constructor & Destructor Documentation

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>

BidomainAssembler< ELEMENT_DIM, SPACE_DIM >::BidomainAssembler	(	AbstractTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > *	pMesh,
		BidomainTissue< SPACE_DIM > *	pTissue,
		unsigned	numQuadPoints = `2`
	)			`[inline]`

Constructor stores the mesh and pde and sets up boundary conditions.

Parameters:

	pMesh	pointer to the mesh
	pTissue	pointer to the tissue
	numQuadPoints	number of quadrature points in each dimension

Definition at line 95 of file BidomainAssembler.cpp.

References HeartConfig::Instance(), and BidomainAssembler< ELEMENT_DIM, SPACE_DIM >::mpConfig.

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>

BidomainAssembler< ELEMENT_DIM, SPACE_DIM >::~BidomainAssembler ( ) [inline]

Destructor.

Definition at line 106 of file BidomainAssembler.hpp.

Member Function Documentation

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>

c_matrix< double, 2 (ELEMENT_DIM+1), 2 (ELEMENT_DIM+1)> BidomainAssembler< 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
	)			`[inline, protected, virtual]`

ComputeMatrixTerm()

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