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CEPS
24.01
Cardiac ElectroPhysiology Simulator
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CEPS
24.01
Cardiac ElectroPhysiology Simulator
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Assembles the heat problem matrix for a given set of finite elements. here the diffusion coefficient is dependant of time and/or space.
The time factor defined in the class multiplies the mass matrix, so it should be homogeneous to 1/dt
Definition at line 41 of file FEHeatAssembler.hpp.
#include <FEHeatAssembler.hpp>
Public Member Functions | |
| FEHeatAssembler (FiniteElements *fe, CepsBool isBoundary=false, const CepsSet< CepsAttribute > &attributes={CepsUniversal}, const CepsVector< Unknown * > &unknowns={}) | |
| Constructor with finite elements. More... | |
 Public Member Functions inherited from FEDivKGradAssembler | |
| FEDivKGradAssembler () | |
| Default constructor (for virtual inheritance) More... | |
| FEDivKGradAssembler (FiniteElements *fe, CepsBool isBoundary=false, const CepsSet< CepsAttribute > &attributes={CepsUniversal}, const CepsVector< Unknown * > &unknowns={}) | |
| Constructor with finite elements. More... | |
| virtual | ~FEDivKGradAssembler () |
| Destructor. More... | |
| void | setKForUnknown (Unknown *u, CepsMathScalar k) |
| Register the diffusion coefficient (x,t,...) for given unknown. More... | |
| void | setKForUnknown (Unknown *u, SAFunc< CepsMathScalar > *k) |
| Register the diffusion coefficient (x,t,...) for given unknown. More... | |
| void | setKForUnknown (Unknown *u, CepsMathTensor k) |
| Register the diffusion coefficient (x,t,...) for given unknown. More... | |
| void | setKForUnknown (Unknown *u, SAFunc< CepsMathTensor > *k) |
| Register the diffusion coefficient (x,t,...) for given unknown. More... | |
| CepsBool | isChangingBetweenTimes (CepsReal t1, CepsReal t2) const override |
| Tells if this assembler changes between the two times. More... | |
| Public Member Functions inherited from FEAssembler | |
| FEAssembler () | |
| default constructor used for virtual inheritance More... | |
| FEAssembler (FiniteElements *fe, CepsBool isBoundary=false, const CepsSet< CepsAttribute > &attributes={CepsUniversal}, const CepsVector< Unknown * > &unknowns={}) | |
| Constructor with finite elements structure. More... | |
| ~FEAssembler () override | |
| Destructor. More... | |
| void | assemble (CepsReal t=0., CepsBool finalize=true) override |
| Main assembly call. Fills the linear system pointed by the class. More... | |
| Public Member Functions inherited from AbstractAssembler | |
| AbstractAssembler () | |
| Default constructor (used for virtual inheritance) More... | |
| AbstractAssembler (AbstractDiscretization *discr, const CepsSet< CepsAttribute > &attributes={CepsUniversal}, const CepsVector< Unknown * > &unknowns={}) | |
| Basic constructor If the given attributes is empty, the assembler will assemble everywhere (CepsUniversal) Similar for unknowns: no unknown specified means assembly will be for all unknowns. More... | |
| AbstractAssembler (const AbstractAssembler &that)=delete | |
| No copy constructor. More... | |
| AbstractAssembler & | operator= (const AbstractAssembler &that)=delete |
| No assignement operator. More... | |
| virtual | ~AbstractAssembler () |
| Destructor. More... | |
| virtual void | assembleForZeroDDof (DegreeOfFreedom *dof, CepsReal t=0.) |
| Assembly routine for zeroD dofs. Does nothing by default, redefine in derived classes. More... | |
| CepsBool | isAssemblingMatrix () const |
| True if ptr to matrix has been set. More... | |
| DistributedMatrix * | getMatrix () |
| The matrix to assemble. More... | |
| void | setMatrix (DistributedMatrix *mat) |
| The matrix to assemble. More... | |
| CepsBool | isAssemblingVector () const |
| True if ptr to vector has been set. More... | |
| DistributedVector * | getVector () |
| The vector to assemble. More... | |
| void | setVector (DistributedVector *vec) |
| The vector to assemble. More... | |
| void | setScaleFactor (CepsReal scaleFactor) |
| Factor that multiplies all coefficients to put in linear system. More... | |
| CepsReal | getScaleFactor () const |
| Factor that multiplies all coefficients to put in linear system. More... | |
| void | setAssemblingFlag (const CepsAssemblingFlag &value) |
| Part to assemble in an assembler, see values of CepsAssemblingFlag. More... | |
| CepsAssemblingFlag | getAssemblingFlag () const |
| Get part to assemble in an assembler, see values of CepsAssemblingFlag. More... | |
| AbstractPdeProblem * | getProblem () const |
| Link to PDE problem. More... | |
| Public Member Functions inherited from ceps::HoldsAttributes | |
| HoldsAttributes (const CepsSet< CepsAttribute > &attributes) | |
| Constructor with any number of attributes. More... | |
| HoldsAttributes (const CepsVector< CepsAttribute > &attributes) | |
| Constructor with any number of attributes. More... | |
| HoldsAttributes (CepsAttribute *attributes, const CepsUInt &n) | |
| Constructor with any number of attributes. More... | |
| HoldsAttributes ()=default | |
| Default constructor. More... | |
| HoldsAttributes (const HoldsAttributes &)=default | |
| Assignement operator. More... | |
| HoldsAttributes (HoldsAttributes &&) noexcept=default | |
| Copy constructor. More... | |
| virtual | ~HoldsAttributes ()=default |
| Destructor. More... | |
| HoldsAttributes & | operator= (const HoldsAttributes &)=default |
| Assignment operator. More... | |
| HoldsAttributes & | operator= (HoldsAttributes &&) noexcept=default |
| Assignment operator. More... | |
| CepsUInt | getNumberOfAttributes () const |
| Returns number of attributes of the entity. More... | |
| CepsSet< CepsAttribute > & | getAttributes () |
| Returns the attributes of the entity. More... | |
| const CepsSet< CepsAttribute > & | getAttributes () const |
| Returns the attributes of the entity, const version. More... | |
| void | setAttributes (const CepsVector< CepsAttribute > &attributes) |
| Sets the attributes of the entity. More... | |
| void | setAttributes (const CepsSet< CepsAttribute > &attributes) |
| Sets the attributes of the entity. More... | |
| void | setAttributes (const CepsAttribute *attributes, const CepsUInt &n) |
| Sets the attributes of the entity. More... | |
| template<class _It > | |
| void | setAttributes (_It first, _It last) |
| Sets the attributes of the entity. More... | |
| void | addAttribute (const CepsAttribute &name) |
| Adds an attribute to the entity. More... | |
| void | addAttributes (const CepsVector< CepsAttribute > &attributes) |
| Adds several attributes to the entity. More... | |
| void | addAttributes (const CepsSet< CepsAttribute > &attributes) |
| Adds several attributes to the entity. More... | |
| void | addAttributes (const CepsAttribute *attributes, const CepsUInt &n) |
| Adds several attributes to the entity. More... | |
| template<class _It > | |
| void | addAttributes (_It first, _It last) |
| Adds several attributes to the entity. More... | |
| void | removeAttribute (const CepsAttribute &name) |
| Removes an attribute from the entity. More... | |
| void | removeAttributes (const CepsSet< CepsAttribute > &attributes) |
| Removes several attributes from the entity. More... | |
| void | removeAttributes (const CepsVector< CepsAttribute > &attributes) |
| Removes several attributes from the entity. More... | |
| void | removeAttributes (const CepsAttribute *attributes, const CepsUInt &n) |
| Removes several attributes from the entity. More... | |
| template<class _It > | |
| void | removeAttributes (_It first, _It last) |
| Removes several attributes from the entity. More... | |
| void | clearAttributes () |
| Removes all attributes from the entity. More... | |
| CepsBool | hasAttribute (const CepsAttribute &name) const |
| Tells if the entity has the attribute in argument. More... | |
| CepsBool | hasAllAttributes (const CepsVector< CepsAttribute > &attributes) const |
| Tells if the entity has all the attributes in argument. More... | |
| CepsBool | hasAllAttributes (const CepsAttribute *attributes, const CepsUInt &n) const |
| Tells if the entity has all the attributes in argument. More... | |
| template<class _It > | |
| CepsBool | hasAllAttributes (_It first, _It last) const |
| Tells if the entity has all the attributes in argument. More... | |
| CepsBool | hasOneOfAttributes (const CepsSet< CepsAttribute > &attributes) const |
| Tells if the entity has one of the attributes in argument. More... | |
| CepsBool | hasOneOfAttributes (const CepsVector< CepsAttribute > &attributes) const |
| Tells if the entity has one of the attributes in argument. More... | |
| CepsBool | hasOneOfAttributes (const CepsAttribute *attributes, const CepsUInt &n) const |
| Tells if the entity has one of the attributes in argument. More... | |
| template<class _It > | |
| CepsBool | hasOneOfAttributes (_It first, _It last) const |
| Tells if the entity has one of the attributes in argument. More... | |
| CepsBool | hasUniversalAttribute () const |
| Detect if the current entity has the attribute universal. More... | |
| void | reset () |
| Equivalent to HoldsAttributes::clear() More... | |
| Public Member Functions inherited from CepsObject | |
| CepsObject ()=default | |
| default constructor More... | |
| CepsObject (const CepsObject &)=default | |
| Copy constructor. More... | |
| virtual | ~CepsObject ()=default |
| Destructor. More... | |
| CepsObject & | operator= (const CepsObject &)=default |
| Assignment operator. More... | |
| CepsObject * | toBaseObject () |
| Returns a pointer to CepsObject class. More... | |
| const CepsObject * | toBaseObject () const |
| Returns a pointer to CepsObject class, const version. More... | |
| Profiler * | getProfiler () const |
| Access to profiler. More... | |
Protected Member Functions | |
| virtual void | computeBlocksOnElementAtQuadPoint (FEBase *element, CepsReal3D xQ, CepsReal t, const CepsMathDynamic1D &phi, const CepsMathDynamic2D &gradPhi) override |
| The function that is called to get the coefficients of the submatrix on a given finite element. This function MUST start with a call to setupSubmatrixOnElementForUnknowns, and MUST add something to m_bMat or m_bVec to be effective. More... | |
| Protected Member Functions inherited from FEDivKGradAssembler | |
| CepsVector< CepsMathTensor > | getDiffusionTensorsForUnknowns (const CepsVector< Unknown * > &us, FEBase *elem, CepsReal3D x, CepsReal t) const |
| Returns tensors with the correct k tensor type. To be defined in child classes. More... | |
| Protected Member Functions inherited from FEAssembler | |
| void | prepareQuadratures () |
| Precompute phi and grad phi at quadrature points. More... | |
| void | init () |
| Set the element iterator to the right place. More... | |
| void | next () |
| Move to next element, selected by attribute. More... | |
| CepsBool | finished () |
| Tells if end of loop is reached. More... | |
| void | assembleForCurrentElement (CepsReal t) |
| Computes the submatrix and subvector for the currently selected element and add its contribution to the system. More... | |
| CepsVector< Unknown * > | extractUnknownsFrom (const CepsVector< Unknown * > &us, FEBase *elem) const |
| From a vector of unknowns, get the ones defined on that element. More... | |
| void | setupBlocksOnElementForUnknown (FEBase *elem, Unknown *unknown) |
| Get all the dofs on an element related to the given unknowns. This routine MUST be called before sumBlockContribution. It resizes and zeroes the internal submatrix and dofs index mapping (between submatrix and global matrix). Even if a single unknown is given, the output is the same as for several unknowns. More... | |
| virtual void | setupBlocksOnElementForUnknowns (FEBase *elem, const CepsVector< Unknown * > &unknowns) |
| Get all the dofs on an element related to the given unknowns. This routine MUST be called before addBlockContribution. It resizes and zeroes the internal submatrix and dofs index mapping (between submatrix and global matrix). The dofs are regrouped by unknown, each group being of size the number of FE nodes of the element. More... | |
| void | sumBlockContribution (CepsReal weight) |
| Adds w*m_bMat to m_bMatTemp, same for vectors. The weight should be jacobian*quad weight for which computeMatrixOnElement has been called. More... | |
| virtual void | addZeroDMatBlockContribution (CepsReal value, DegreeOfFreedom *a, DegreeOfFreedom *b) |
| Add a 0D contribution into the matrix. More... | |
| void | addZeroDMatBlockContributions (const CepsVector< CepsReal > &values, DegreeOfFreedom *a, const CepsVector< DegreeOfFreedom * > &b, CepsReal factor=1.0) |
| Add 0D contributions into the matrix. More... | |
| virtual void | addZeroDVecBlockContribution (CepsReal value, DegreeOfFreedom *dof) |
| Add a 0D contribution into the vector. More... | |
| void | addBlockContribution () |
| Add the content of the block matrices in the global matrix, and the content of the block vectors in the the global vector. More... | |
| virtual void | addMatrixBlockContribution () |
| Add the content of the block matrices in the global matrix. More... | |
| virtual void | addVectorBlockContribution () |
| Add the content of the block vectors in the the global vector. More... | |
Additional Inherited Members | |
| Protected Attributes inherited from FEDivKGradAssembler | |
| CepsMap< CepsUnknownIndex, CepsMathScalar > | m_cstScalars |
| Diffusion coefficient. More... | |
| CepsMap< CepsUnknownIndex, SAFunc< CepsMathScalar > * > | m_fctScalars |
| Diffusion coefficient. More... | |
| CepsMap< CepsUnknownIndex, CepsMathTensor > | m_cstTensors |
| Diffusion coefficient. More... | |
| CepsMap< CepsUnknownIndex, SAFunc< CepsMathTensor > * > | m_fctTensors |
| Diffusion coefficient. More... | |
| CepsBool | m_isTimeDependant |
| Enforce time dependencie. More... | |
| Protected Attributes inherited from FEAssembler | |
| FiniteElements * | m_fe |
| Pointer to finite elements structure. More... | |
| CepsBool | m_boundaryOnly |
| Flag for localization of what to assemble. More... | |
| CepsVector< FEBase * >::iterator | m_elem |
| Iterator on elements. It will loop through elements for dim3, dim2 then dim1 of m_fe. More... | |
| CepsVector< FEBase * > * | m_toParse |
| The vector of elements to parse;. More... | |
| CepsMap< CepsCellType, CepsArray4< IntegrationTools * > > | m_tools |
| Integration tools. More... | |
| CepsVector< CepsVector< CepsMathDynamic2D > > | m_bMat |
| Block submatrices. The first two vectors account for unknowns: if assembly on element if for unknowns {u1,u2}, then m_bMat[0][1] is for the contributions of u2 on lines for u1. Each submatrix is of size NxN where N is the number of FE Nodes in the elements (not dofs) The *SumQuads one is to compute for all quadrature points. More... | |
| CepsVector< CepsVector< CepsMathDynamic2D > > | m_bMatSumQuads |
| Block submatrices. The first two vectors account for unknowns: if assembly on element if for unknowns {u1,u2}, then m_bMat[0][1] is for the contributions of u2 on lines for u1. Each submatrix is of size NxN where N is the number of FE Nodes in the elements (not dofs) The *SumQuads one is to compute for all quadrature points. More... | |
| CepsVector< CepsVector< CepsBool > > | m_addMatBlock |
| Prevents additions of blocks for interactions between unknowns that have not been set. More... | |
| CepsVector< CepsMathDynamic1D > | m_bVec |
| Block vector,. More... | |
| CepsVector< CepsMathDynamic1D > | m_bVecSumQuads |
| Block vector,. More... | |
| CepsVector< CepsBool > | m_addVecBlock |
| Prevents additions of blocks for interactions between unknowns that have not been set. More... | |
| CepsBool | m_newBlocksNeeded |
| Flag to ensure that the blocks are resized only once. More... | |
| CepsVector< CepsVector< CepsDofGlobalIndex > > | m_dofsBlockMapping |
| Mapping between lines of submatrix m_bMat m_bVec and global matrix indices. More... | |
| CepsVector< CepsVector< DegreeOfFreedom * > > | m_dofsBlock |
| Degrees of freedom corresponding to elementary matrix rows. More... | |
| Protected Attributes inherited from AbstractAssembler | |
| AbstractPdeProblem * | m_problem |
| Direct link to problem, you may write getXXXProblem methods in derived classes that return the right kind of PdeProblem pointer. More... | |
| DistributedMatrix * | m_gMat |
| Global matrix. More... | |
| DistributedVector * | m_gVec |
| Global Vector. More... | |
| CepsReal | m_scaleFactor |
| Scale factor. More... | |
| CepsVector< Unknown * > | m_unknownsWL |
| White list of unknowns. More... | |
| CepsAssemblingFlag | m_assemblingFlag |
| Switch from an assembling to another (see CepsAssemblingFlag) More... | |
| Protected Attributes inherited from ceps::HoldsAttributes | |
| CepsSet< CepsAttribute > | m_attributes |
| The attributes held by the entity. More... | |
| Static Protected Attributes inherited from CepsObject | |
| static Profiler | m_profiler |
| The same profiler for each big object. More... | |
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explicit |
Constructor with finite elements.
Definition at line 32 of file FEHeatAssembler.cpp.
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overrideprotectedvirtual |
The function that is called to get the coefficients of the submatrix on a given finite element. This function MUST start with a call to setupSubmatrixOnElementForUnknowns, and MUST add something to m_bMat or m_bVec to be effective.
| element | The element on which to assemble |
| xQ | Quadrature point where to evaluate submatrix |
| t | Current time for function evaluation if needed |
| phi | The values of all basis functions at quadrature point xQ |
| gradPhi | The values of all basis function derivatives at quadrature point xQ |
Reimplemented from FEDivKGradAssembler.
Reimplemented in FEPacemakerBidomainAssembler, FEMonodomainIntraAssembler, FEMonodomainAssembler, FEExtendedBidomainAssembler, FEBilayerMonodomainAssembler, and FEBidomainAssembler.
Definition at line 43 of file FEHeatAssembler.cpp.
1.9.1