Chaste Release::3.1
Public Member Functions | Protected Member Functions | Protected Attributes
ExtendedBidomainAssembler< ELEMENT_DIM, SPACE_DIM > Class Template Reference

#include <ExtendedBidomainAssembler.hpp>

Inheritance diagram for ExtendedBidomainAssembler< ELEMENT_DIM, SPACE_DIM >:
Collaboration diagram for ExtendedBidomainAssembler< ELEMENT_DIM, SPACE_DIM >:

List of all members.

Public Member Functions

 ExtendedBidomainAssembler (AbstractTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > *pMesh, ExtendedBidomainTissue< SPACE_DIM > *pTissue, unsigned numQuadPoints=2)
 ~ExtendedBidomainAssembler ()

Protected Member Functions

virtual c_matrix< double,
3 *(ELEMENT_DIM+1),
3 *(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, 3 > &rU, c_matrix< double, 3, SPACE_DIM > &rGradU, Element< ELEMENT_DIM, SPACE_DIM > *pElement)

Protected Attributes

ExtendedBidomainTissue
< SPACE_DIM > * 		mpExtendedBidomainTissue
HeartConfig * mpConfig

Detailed Description

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

This is a derived class of AbstractCardiacFeVolumeIntegralAssembler and takes care of assembling LHS for solution of the extended bidomain euqations

See Buist ML, Poh YC. An Extended Bidomain Framework Incorporating Multiple Cell Types. Biophysical Journal, Volume 99, Issue 1, 13-18, 7 July 2010.

Major differences with bidomain assembler:

  • there are two cells (instead of one)
  • extracellular stimulus is present

Definition at line 71 of file ExtendedBidomainAssembler.hpp.

Constructor & Destructor Documentation

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
ExtendedBidomainAssembler< ELEMENT_DIM, SPACE_DIM >::ExtendedBidomainAssembler ( AbstractTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > *  pMesh,
ExtendedBidomainTissue< SPACE_DIM > *  pTissue,
unsigned  numQuadPoints = 2 
)

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

Parameters:
pMeshpointer to the mesh
pTissuepointer to the tissue
numQuadPointsnumber of quadrature points (defaults to 2)

Definition at line 134 of file ExtendedBidomainAssembler.cpp.

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

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
ExtendedBidomainAssembler< ELEMENT_DIM, SPACE_DIM >::~ExtendedBidomainAssembler ( )

Destructor.

Definition at line 146 of file ExtendedBidomainAssembler.cpp.

Member Function Documentation

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
c_matrix< double, 3 *(ELEMENT_DIM+1), 3 *(ELEMENT_DIM+1)> ExtendedBidomainAssembler< 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, 3 > &  rU,
c_matrix< double, 3, SPACE_DIM > &  rGradU,
Element< ELEMENT_DIM, SPACE_DIM > *  pElement 
) [protected, virtual]

ComputeMatrixTerm()

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

Parameters:
rPhiThe basis functions, rPhi(i) = phi_i, i=1..numBases
rGradPhiBasis gradients, rGradPhi(i,j) = d(phi_j)/d(X_i)
rXThe point in space
rUThe unknown as a vector, u(i) = u_i
rGradUThe gradient of the unknown as a matrix, rGradU(i,j) = d(u_i)/d(X_j)
pElementPointer to the element

Definition at line 46 of file ExtendedBidomainAssembler.cpp.

References AbstractElement< ELEMENT_DIM, SPACE_DIM >::GetIndex(), and PdeSimulationTime::GetPdeTimeStep().

Member Data Documentation

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
HeartConfig* ExtendedBidomainAssembler< ELEMENT_DIM, SPACE_DIM >::mpConfig [protected]

Local cache of the configuration singleton instance

Definition at line 81 of file ExtendedBidomainAssembler.hpp.

Referenced by ExtendedBidomainAssembler< ELEMENT_DIM, SPACE_DIM >::ExtendedBidomainAssembler().

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
ExtendedBidomainTissue<SPACE_DIM>* ExtendedBidomainAssembler< ELEMENT_DIM, SPACE_DIM >::mpExtendedBidomainTissue [protected]

The tissue for which we assemble the matrix

Definition at line 78 of file ExtendedBidomainAssembler.hpp.

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