Chaste  Release::2018.1
Public Member Functions | Protected Member Functions | List of all members
BidomainMassMatrixAssembler< DIM > Class Template Reference

#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
pMeshpointer 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
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
Returns
stencil matrix

Definition at line 40 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: