Volume finite element base. More...

#include "src/finite_elements/VolumeElementForcesAndSourcesCore.hpp"

Inheritance diagram for MoFEM::VolumeElementForcesAndSourcesCore:

Collaboration diagram for MoFEM::VolumeElementForcesAndSourcesCore:

Classes
struct	UserDataOperator

Public Types
enum	Switches

Public Types inherited from MoFEM::ForcesAndSourcesCore
typedef boost::function< int(int order_row, int order_col, int order_data)>	RuleHookFun

typedef boost::function< MoFEMErrorCode(ForcesAndSourcesCore *fe_raw_ptr, int order_row, int order_col, int order_data)>	GaussHookFun

Public Types inherited from MoFEM::KspMethod
enum	KSPContext { CTX_SETFUNCTION , CTX_OPERATORS , CTX_KSPNONE }
	Context enumeration for KSP solver phases. More...

Public Types inherited from MoFEM::PetscData
enum	DataContext { CTX_SET_NONE = 0 , CTX_SET_F = 1 << 0 , CTX_SET_A = 1 << 1 , CTX_SET_B = 1 << 2 , CTX_SET_X = 1 << 3 , CTX_SET_DX = 1 << 4 , CTX_SET_X_T = 1 << 5 , CTX_SET_X_TT = 1 << 6 , CTX_SET_TIME = 1 << 7 }
	Enumeration for data context flags. More...

using	Switches = std::bitset< 8 >
	Bitset type for context switches.

Public Types inherited from MoFEM::SnesMethod
enum	SNESContext { CTX_SNESSETFUNCTION , CTX_SNESSETJACOBIAN , CTX_SNESNONE }
	Context enumeration for SNES solver phases. More...

Public Types inherited from MoFEM::TSMethod
enum	TSContext { CTX_TSSETRHSFUNCTION , CTX_TSSETRHSJACOBIAN , CTX_TSSETIFUNCTION , CTX_TSSETIJACOBIAN , CTX_TSTSMONITORSET , CTX_TSNONE }
	Context enumeration for TS solver phases. More...

Public Types inherited from MoFEM::TaoMethod
enum	TAOContext { CTX_TAO_OBJECTIVE , CTX_TAO_GRADIENT , CTX_TAO_HESSIAN , CTX_TAO_NONE }
	Context enumeration for TAO solver phases. More...

Public Member Functions
	VolumeElementForcesAndSourcesCore (Interface &m_field)

DEPRECATED	VolumeElementForcesAndSourcesCore (Interface &m_field, const EntityType type)

MoFEMErrorCode	operator() ()
	Main operator function executed for each loop iteration.

Public Member Functions inherited from MoFEM::ForcesAndSourcesCore
	ForcesAndSourcesCore (Interface &m_field)

boost::ptr_deque< UserDataOperator > &	getOpPtrVector ()
	Use to push back operator for row operator.

auto &	getElementPolynomialBase ()
	Get the Entity Polynomial Base object.

auto &	getUserPolynomialBase ()
	Get the User Polynomial Base object.

virtual MoFEMErrorCode	preProcess ()
	Pre-processing function executed at loop initialization.

virtual MoFEMErrorCode	postProcess ()
	Post-processing function executed at loop completion.

int	getMaxDataOrder () const
	Get max order of approximation for data fields.

int	getMaxRowOrder () const
	Get max order of approximation for field in rows.

int	getMaxColOrder () const
	Get max order of approximation for field in columns.

auto &	getEntData (const FieldSpace space, const EntityType type, const int side)
	Get the entity data.

auto &	getDataOnElementBySpaceArray ()
	Get data on entities and space.

auto &	getDerivedDataOnElementBySpaceArray ()
	Get derived data on entities and space.

Public Member Functions inherited from MoFEM::FEMethod
MoFEMErrorCode	query_interface (boost::typeindex::type_index, UnknownInterface **iface) const
	Query interface for type casting.

	FEMethod ()=default
	Default constructor.

auto	getFEName () const
	Get the name of the current finite element.

auto	getDataDofsPtr () const
	Get pointer to DOF data for the current finite element.

auto	getDataVectorDofsPtr () const
	Get pointer to vector DOF data for the current finite element.

const FieldEntity_vector_view &	getDataFieldEnts () const
	Get reference to data field entities for the current finite element.

boost::shared_ptr< FieldEntity_vector_view > &	getDataFieldEntsPtr () const
	Get shared pointer to data field entities for the current finite element.

auto &	getRowFieldEnts () const
	Get reference to row field entities for the current finite element.

auto &	getRowFieldEntsPtr () const
	Get shared pointer to row field entities for the current finite element.

auto &	getColFieldEnts () const
	Get reference to column field entities for the current finite element.

auto &	getColFieldEntsPtr () const
	Get shared pointer to column field entities for the current finite element.

auto	getRowDofsPtr () const
	Get pointer to row DOFs for the current finite element.

auto	getColDofsPtr () const
	Get pointer to column DOFs for the current finite element.

auto	getNumberOfNodes () const
	Get the number of nodes in the current finite element.

EntityHandle	getFEEntityHandle () const
	Get the entity handle of the current finite element.

MoFEMErrorCode	getNodeData (const std::string field_name, VectorDouble &data, const bool reset_dofs=true)
	Get nodal data for a specific field.

Public Member Functions inherited from MoFEM::BasicMethod
	BasicMethod ()
	Default constructor.

virtual	~BasicMethod ()=default
	Virtual destructor.

int	getNinTheLoop () const
	Get current loop iteration index.

int	getLoopSize () const
	Get total loop size.

auto	getLoHiFERank () const
	Get processor rank range for finite element iteration.

auto	getLoFERank () const
	Get lower processor rank for finite element iteration.

auto	getHiFERank () const
	Get upper processor rank for finite element iteration.

unsigned int	getFieldBitNumber (std::string field_name) const
	Get bit number for a specific field by name.

MoFEMErrorCode	copyBasicMethod (const BasicMethod &basic)
	Copy data from another BasicMethod instance.

boost::weak_ptr< CacheTuple >	getCacheWeakPtr () const
	Get the cache weak pointer object.

Public Member Functions inherited from MoFEM::KspMethod
MoFEMErrorCode	query_interface (boost::typeindex::type_index type_index, UnknownInterface **iface) const
	Query interface for type casting.

	KspMethod ()
	Default constructor.

virtual	~KspMethod ()=default
	Virtual destructor.

MoFEMErrorCode	copyKsp (const KspMethod &ksp)
	Copy data from another KSP method.

Public Member Functions inherited from MoFEM::PetscData
	PetscData ()
	Default constructor.

virtual	~PetscData ()=default
	Virtual destructor.

MoFEMErrorCode	copyPetscData (const PetscData &petsc_data)
	Copy PETSc data from another instance.

Public Member Functions inherited from MoFEM::UnknownInterface
template<class IFACE >
MoFEMErrorCode	registerInterface (bool error_if_registration_failed=true)
	Register interface.

template<class IFACE >
MoFEMErrorCode	getInterface (IFACE *&iface) const
	Get interface reference to pointer of interface.

template<class IFACE >
MoFEMErrorCode	getInterface (IFACE **const iface) const
	Get interface pointer to pointer of interface.

template<class IFACE , typename boost::enable_if< boost::is_pointer< IFACE >, int >::type = 0>
IFACE	getInterface () const
	Get interface pointer to pointer of interface.

template<class IFACE , typename boost::enable_if< boost::is_reference< IFACE >, int >::type = 0>
IFACE	getInterface () const
	Get reference to interface.

template<class IFACE >
IFACE *	getInterface () const
	Function returning pointer to interface.

virtual	~UnknownInterface ()=default

Public Member Functions inherited from MoFEM::SnesMethod
MoFEMErrorCode	query_interface (boost::typeindex::type_index type_index, UnknownInterface **iface) const
	Query interface for type casting.

	SnesMethod ()
	Default constructor.

virtual	~SnesMethod ()=default
	Virtual destructor.

MoFEMErrorCode	copySnes (const SnesMethod &snes)
	Copy SNES data from another instance.

Public Member Functions inherited from MoFEM::TSMethod
MoFEMErrorCode	query_interface (boost::typeindex::type_index type_index, UnknownInterface **iface) const
	Query interface for type casting.

	TSMethod ()
	Default constructor.

virtual	~TSMethod ()=default
	Virtual destructor.

MoFEMErrorCode	copyTs (const TSMethod &ts)
	Copy TS solver data from another instance.

Public Member Functions inherited from MoFEM::TaoMethod
MoFEMErrorCode	query_interface (boost::typeindex::type_index type_index, UnknownInterface **iface) const
	Query interface for type casting.

	TaoMethod ()
	Default constructor.

virtual	~TaoMethod ()=default
	Virtual destructor.

MoFEMErrorCode	copyTao (const TaoMethod &tao)
	Copy TAO data from another instance.

Public Attributes
std::string	meshPositionsFieldName

Public Attributes inherited from MoFEM::ForcesAndSourcesCore
Interface &	mField

RuleHookFun	getRuleHook
	Hook to get rule.

GaussHookFun	setRuleHook
	Set function to calculate integration rule.

MatrixDouble	gaussPts
	Matrix of integration points.

Public Attributes inherited from MoFEM::FEMethod
std::string	feName
	Name of the finite element being processed.

boost::shared_ptr< const NumeredEntFiniteElement >	numeredEntFiniteElementPtr
	Shared pointer to finite element database structure.

boost::function< bool(FEMethod *fe_method_ptr)>	exeTestHook
	Test function to determine if element should be skipped.

Public Attributes inherited from MoFEM::BasicMethod
int	nInTheLoop
	Current index of processed method in the loop.

int	loopSize
	Total number of methods to process in the loop.

std::pair< int, int >	loHiFERank
	Processor rank range for distributed finite element iteration.

int	rAnk
	Current processor rank in MPI communicator.

int	sIze
	Total number of processors in MPI communicator.

const RefEntity_multiIndex *	refinedEntitiesPtr = nullptr
	Pointer to container of refined MoFEM DOF entities.

const RefElement_multiIndex *	refinedFiniteElementsPtr = nullptr
	Pointer to container of refined finite element entities.

const Problem *	problemPtr = nullptr
	Raw pointer to current MoFEM problem instance.

const Field_multiIndex *	fieldsPtr = nullptr
	Raw pointer to fields multi-index container.

const FieldEntity_multiIndex *	entitiesPtr = nullptr
	Raw pointer to container of field entities.

const DofEntity_multiIndex *	dofsPtr = nullptr
	Raw pointer to container of degree of freedom entities.

const FiniteElement_multiIndex *	finiteElementsPtr = nullptr
	Raw pointer to container of finite elements.

const EntFiniteElement_multiIndex *	finiteElementsEntitiesPtr = nullptr
	Raw pointer to container of finite element entities.

const FieldEntityEntFiniteElementAdjacencyMap_multiIndex *	adjacenciesPtr = nullptr
	Raw pointer to container of adjacencies between DOFs and finite elements.

boost::function< MoFEMErrorCode()>	preProcessHook
	Hook function for pre-processing operations.

boost::function< MoFEMErrorCode()>	postProcessHook
	Hook function for post-processing operations.

boost::function< MoFEMErrorCode()>	operatorHook
	Hook function for main operator execution.

boost::movelib::unique_ptr< bool >	vecAssembleSwitch
	Switch for vector assembly operations.

boost::movelib::unique_ptr< bool >	matAssembleSwitch
	Switch for matrix assembly operations.

boost::weak_ptr< CacheTuple >	cacheWeakPtr
	Weak pointer to cached entity data.

Public Attributes inherited from MoFEM::KspMethod
KSPContext	ksp_ctx = CTX_KSPNONE
	Current KSP computation context.

KSP	ksp = PETSC_NULLPTR
	PETSc KSP linear solver object.

Vec &	ksp_f
	Reference to residual vector in KSP context.

Mat &	ksp_A
	Reference to system matrix in KSP context.

Mat &	ksp_B
	Reference to preconditioner matrix in KSP context.

Public Attributes inherited from MoFEM::PetscData
Switches	data_ctx = CtxSetNone
	Current data context switches.

Vec	f = PETSC_NULLPTR
	PETSc residual vector.

Mat	A = PETSC_NULLPTR
	PETSc Jacobian matrix.

Mat	B = PETSC_NULLPTR
	PETSc preconditioner matrix.

Vec	x = PETSC_NULLPTR
	PETSc solution vector.

Vec	dx = PETSC_NULLPTR
	PETSc solution increment vector.

Vec	x_t = PETSC_NULLPTR
	PETSc first time derivative vector.

Vec	x_tt = PETSC_NULLPTR
	PETSc second time derivative vector.

Public Attributes inherited from MoFEM::SnesMethod
SNESContext	snes_ctx = CTX_SNESNONE
	Current SNES computation context.

SNES	snes = PETSC_NULLPTR
	PETSc SNES nonlinear solver object.

Vec &	snes_x
	Reference to current solution state vector.

Vec &	snes_dx
	Reference to solution update/increment vector.

Vec &	snes_f
	Reference to residual vector.

Mat &	snes_A
	Reference to Jacobian matrix.

Mat &	snes_B
	Reference to preconditioner of Jacobian matrix.

Public Attributes inherited from MoFEM::TSMethod
TS	ts = PETSC_NULLPTR
	PETSc time stepping solver object.

TSContext	ts_ctx = CTX_TSNONE
	Current TS computation context.

PetscInt	ts_step
	Current time step number.

PetscReal	ts_a
	Shift parameter for U_t (see PETSc Time Solver documentation)

PetscReal	ts_aa
	Shift parameter for U_tt (second time derivative)

PetscReal	ts_t
	Current time value.

PetscReal	ts_dt
	Current time step size.

Vec &	ts_u
	Reference to current state vector U(t)

Vec &	ts_u_t
	Reference to first time derivative of state vector dU/dt.

Vec &	ts_u_tt
	Reference to second time derivative of state vector d²U/dt²

Vec &	ts_F
	Reference to residual vector F(t,U,U_t,U_tt)

Mat &	ts_A
	Reference to Jacobian matrix: dF/dU + adF/dU_t + aadF/dU_tt.

Mat &	ts_B
	Reference to preconditioner matrix for ts_A.

Public Attributes inherited from MoFEM::TaoMethod
TAOContext	tao_ctx = CTX_TAO_NONE
	Current TAO computation context.

Tao	tao = PETSC_NULLPTR
	PETSc TAO optimization solver object.

Vec &	tao_x
	Reference to optimization variables vector.

Vec &	tao_f
	Reference to gradient vector.

Mat &	tao_A
	Reference to Hessian matrix.

Mat &	tao_B
	Reference to preconditioner matrix for Hessian.

Protected Member Functions
virtual MoFEMErrorCode	setIntegrationPts ()
	Set integration points.

virtual MoFEMErrorCode	calculateVolumeAndJacobian ()
	Calculate element volume and Jacobian.

virtual MoFEMErrorCode	calculateCoordinatesAtGaussPts ()
	Calculate coordinate at integration points.

virtual MoFEMErrorCode	getSpaceBaseAndOrderOnElement ()
	Determine approximation space and order of base functions.

virtual MoFEMErrorCode	transformBaseFunctions ()
	Transform base functions based on geometric element Jacobian.

Protected Member Functions inherited from MoFEM::ForcesAndSourcesCore
MoFEMErrorCode	getEntitySense (const EntityType type, boost::ptr_vector< EntitiesFieldData::EntData > &data) const
	get sense (orientation) of entity

MoFEMErrorCode	getEntityDataOrder (const EntityType type, const FieldSpace space, boost::ptr_vector< EntitiesFieldData::EntData > &data) const
	Get the entity data order.

template<EntityType type>
MoFEMErrorCode	getEntitySense (EntitiesFieldData &data) const
	Get the entity sense (orientation)

template<EntityType type>
MoFEMErrorCode	getEntityDataOrder (EntitiesFieldData &data, const FieldSpace space) const
	Get the entity data order for given space.

MoFEMErrorCode	getFaceNodes (EntitiesFieldData &data) const
	Get nodes on faces.

MoFEMErrorCode	getSpacesAndBaseOnEntities (EntitiesFieldData &data) const
	Get field approximation space and base on entities.

virtual int	getRule (int order_row, int order_col, int order_data)
	another variant of getRule

virtual MoFEMErrorCode	setGaussPts (int order_row, int order_col, int order_data)
	set user specific integration rule

MoFEMErrorCode	calHierarchicalBaseFunctionsOnElement (const FieldApproximationBase b)
	Calculate base functions.

MoFEMErrorCode	calHierarchicalBaseFunctionsOnElement ()
	Calculate base functions.

MoFEMErrorCode	calBernsteinBezierBaseFunctionsOnElement ()
	Calculate Bernstein-Bezier base.

MoFEMErrorCode	createDataOnElement (EntityType type)
	Create a entity data on element object.

MoFEMErrorCode	loopOverOperators ()
	Iterate user data operators.

template<typename EXTRACTOR >
MoFEMErrorCode	getNodesIndices (const int bit_number, FieldEntity_vector_view &ents_field, VectorInt &nodes_indices, VectorInt &local_nodes_indices, EXTRACTOR &&extractor) const
	get node indices

MoFEMErrorCode	getRowNodesIndices (EntitiesFieldData &data, const int bit_number) const
	get row node indices from FENumeredDofEntity_multiIndex

MoFEMErrorCode	getColNodesIndices (EntitiesFieldData &data, const int bit_number) const
	get col node indices from FENumeredDofEntity_multiIndex

template<typename EXTRACTOR >
MoFEMErrorCode	getEntityIndices (EntitiesFieldData &data, const int bit_number, FieldEntity_vector_view &ents_field, const EntityType type_lo, const EntityType type_hi, EXTRACTOR &&extractor) const

MoFEMErrorCode	getEntityRowIndices (EntitiesFieldData &data, const int bit_number, const EntityType type_lo=MBVERTEX, const EntityType type_hi=MBPOLYHEDRON) const

MoFEMErrorCode	getEntityColIndices (EntitiesFieldData &data, const int bit_number, const EntityType type_lo=MBVERTEX, const EntityType type_hi=MBPOLYHEDRON) const

MoFEMErrorCode	getNoFieldRowIndices (EntitiesFieldData &data, const int bit_number) const
	get col NoField indices

MoFEMErrorCode	getNoFieldColIndices (EntitiesFieldData &data, const int bit_number) const
	get col NoField indices

MoFEMErrorCode	getBitRefLevelOnData ()

MoFEMErrorCode	getNodesFieldData (EntitiesFieldData &data, const int bit_number) const
	Get data on nodes.

MoFEMErrorCode	getEntityFieldData (EntitiesFieldData &data, const int bit_number, const EntityType type_lo=MBVERTEX, const EntityType type_hi=MBPOLYHEDRON) const

template<typename EXTRACTOR >
MoFEMErrorCode	getNoFieldEntityFieldData (EntitiesFieldData &data, const int bit_number, EXTRACTOR &&extractor) const
	Get field data on entities where no field is defined.

MoFEMErrorCode	getProblemNodesIndices (const std::string &field_name, const NumeredDofEntity_multiIndex &dofs, VectorInt &nodes_indices) const
	get indices of nodal indices which are declared for problem but not this particular element

MoFEMErrorCode	getProblemTypeIndices (const std::string &field_name, const NumeredDofEntity_multiIndex &dofs, EntityType type, int side_number, VectorInt &indices) const
	get indices by type (generic function) which are declared for problem but not this particular element

MoFEMErrorCode	getProblemNodesRowIndices (const std::string &field_name, VectorInt &nodes_indices) const

MoFEMErrorCode	getProblemTypeRowIndices (const std::string &field_name, EntityType type, int side_number, VectorInt &indices) const

MoFEMErrorCode	getProblemNodesColIndices (const std::string &field_name, VectorInt &nodes_indices) const

MoFEMErrorCode	getProblemTypeColIndices (const std::string &field_name, EntityType type, int side_number, VectorInt &indices) const

virtual int	getRule (int order)

virtual MoFEMErrorCode	setGaussPts (int order)

Protected Attributes
VectorDouble	coords

MatrixDouble3by3	jAc

MatrixDouble3by3	invJac

OpSetInvJacH1	opSetInvJacH1

OpSetContravariantPiolaTransform	opContravariantPiolaTransform

OpSetCovariantPiolaTransform	opCovariantPiolaTransform

OpSetInvJacHdivAndHcurl	opSetInvJacHdivAndHcurl

double &	vOlume

int	num_nodes

const EntityHandle *	conn

FTensor::Tensor2< double *, 3, 3 >	tJac

FTensor::Tensor2< double *, 3, 3 >	tInvJac

Protected Attributes inherited from MoFEM::ForcesAndSourcesCore
const std::array< boost::shared_ptr< EntitiesFieldData >, LASTSPACE >	dataOnElement
	Entity data on element entity rows fields.

const std::array< boost::shared_ptr< EntitiesFieldData >, LASTSPACE >	derivedDataOnElement
	Entity data on element entity columns fields.

EntitiesFieldData &	dataNoField

EntitiesFieldData &	dataH1

EntitiesFieldData &	dataHcurl

EntitiesFieldData &	dataHdiv

EntitiesFieldData &	dataL2

boost::ptr_deque< UserDataOperator >	opPtrVector
	Vector of finite element users data operators.

EntityType	lastEvaluatedElementEntityType
	Last evaluated type of element entity.

MatrixDouble	coordsAtGaussPts
	coordinated at gauss points

double	elementMeasure

Friends
class	UserDataOperator

Additional Inherited Members
Static Public Member Functions inherited from MoFEM::UnknownInterface
static MoFEMErrorCode	getLibVersion (Version &version)
	Get library version.

static MoFEMErrorCode	getFileVersion (moab::Interface &moab, Version &version)
	Get database major version.

static MoFEMErrorCode	setFileVersion (moab::Interface &moab, Version version=Version(MoFEM_VERSION_MAJOR, MoFEM_VERSION_MINOR, MoFEM_VERSION_BUILD))
	Get database major version.

static MoFEMErrorCode	getInterfaceVersion (Version &version)
	Get database major version.

Static Public Attributes inherited from MoFEM::PetscData
static constexpr Switches	CtxSetNone = PetscData::Switches(CTX_SET_NONE)
	No data switch.

static constexpr Switches	CtxSetF = PetscData::Switches(CTX_SET_F)
	Residual vector switch.

static constexpr Switches	CtxSetA = PetscData::Switches(CTX_SET_A)
	Jacobian matrix switch.

static constexpr Switches	CtxSetB = PetscData::Switches(CTX_SET_B)
	Preconditioner matrix switch.

static constexpr Switches	CtxSetX = PetscData::Switches(CTX_SET_X)
	Solution vector switch.

static constexpr Switches	CtxSetDX = PetscData::Switches(CTX_SET_DX)
	Solution increment switch.

static constexpr Switches	CtxSetX_T = PetscData::Switches(CTX_SET_X_T)
	First time derivative switch.

static constexpr Switches	CtxSetX_TT = PetscData::Switches(CTX_SET_X_TT)
	Second time derivative switch.

static constexpr Switches	CtxSetTime = PetscData::Switches(CTX_SET_TIME)
	Time value switch.

Detailed Description

Volume finite element base.

User is implementing own operator at Gauss point level, by class derived from VolumeElementForcesAndSourcesCore::UserDataOperator. Arbitrary number of operator can be added by pushing objects to OpPtrVector

Examples: cell_forces.cpp, mofem/atom_tests/build_large_problem.cpp, mofem/atom_tests/child_and_parent.cpp, mofem/atom_tests/field_evaluator.cpp, mofem/atom_tests/forces_and_sources_testing_users_base.cpp, mofem/atom_tests/operators_tests.cpp, mofem/atom_tests/schur_test_diag_mat.cpp, mofem/atom_tests/test_cache_on_entities.cpp, mofem/tutorials/adv-0_plasticity/plastic.cpp, mofem/tutorials/cor-10_navier_stokes/navier_stokes.cpp, mofem/tutorials/cor-2to5_analytical_poisson/src/PoissonOperators.hpp, mofem/tutorials/cor-6_simple_elasticity/simple_elasticity.cpp, mofem/tutorials/cor-7_elasticity_mixed_formulation/elasticity_mixed_formulation.cpp, mofem/tutorials/fun-0_hello_world/hello_world.cpp, mofem/tutorials/fun-1_integration/integration.cpp, mofem/tutorials/fun-2_plot_base/plot_base.cpp, mofem/tutorials/max-0_magnetostatics/src/MagneticElement.hpp, mofem/tutorials/max-1_lorentz_force//lorentz_force.cpp, mofem/tutorials/scl-0_least_squares/approximation.cpp, mofem/tutorials/vec-1_eigen_elasticity/eigen_elastic.cpp, mofem/tutorials/vec-3_nonlinear_dynamics/nonlinear_dynamic_elastic.cpp, mofem/users_modules/basic_finite_elements/atom_tests/testing_jacobian_of_hook_element.cpp, mofem/users_modules/basic_finite_elements/atom_tests/testing_jacobian_of_hook_scaled_with_density_element.cpp, mofem/users_modules/basic_finite_elements/elasticity/elasticity.cpp, mofem/users_modules/bone_remodelling/src/Remodeling.hpp, plastic.cpp, and thermoplastic.cpp.

Definition at line 26 of file VolumeElementForcesAndSourcesCore.hpp.

Member Enumeration Documentation

◆ Switches

enum MoFEM::VolumeElementForcesAndSourcesCore::Switches

Definition at line 40 of file VolumeElementForcesAndSourcesCore.hpp.

40 {

41 };

Constructor & Destructor Documentation

◆ VolumeElementForcesAndSourcesCore() [1/2]

MoFEM::VolumeElementForcesAndSourcesCore::VolumeElementForcesAndSourcesCore ( Interface & m_field )

Definition at line 11 of file VolumeElementForcesAndSourcesCore.cpp.

    : ForcesAndSourcesCore(m_field), vOlume(elementMeasure),
      meshPositionsFieldName("MESH_NODE_POSITIONS"), coords(24), jAc(3, 3),
      invJac(3, 3), opSetInvJacH1(invJac),
      opContravariantPiolaTransform(elementMeasure, jAc),
      opCovariantPiolaTransform(invJac), opSetInvJacHdivAndHcurl(invJac),
      tJac(&jAc(0, 0), &jAc(0, 1), &jAc(0, 2), &jAc(1, 0), &jAc(1, 1),
           &jAc(1, 2), &jAc(2, 0), &jAc(2, 1), &jAc(2, 2)),
      tInvJac(&invJac(0, 0), &invJac(0, 1), &invJac(0, 2), &invJac(1, 0),
              &invJac(1, 1), &invJac(1, 2), &invJac(2, 0), &invJac(2, 1),
              &invJac(2, 2)) {}

◆ VolumeElementForcesAndSourcesCore() [2/2]

MoFEM::VolumeElementForcesAndSourcesCore::VolumeElementForcesAndSourcesCore	(	Interface &	m_field,
		const EntityType	type
	)

Definition at line 24 of file VolumeElementForcesAndSourcesCore.cpp.

26 : VolumeElementForcesAndSourcesCore(m_field) {}

MoFEM::VolumeElementForcesAndSourcesCore::VolumeElementForcesAndSourcesCore

VolumeElementForcesAndSourcesCore(Interface &m_field)

Definition VolumeElementForcesAndSourcesCore.cpp:11

Member Function Documentation

◆ calculateCoordinatesAtGaussPts()

MoFEMErrorCode MoFEM::VolumeElementForcesAndSourcesCore::calculateCoordinatesAtGaussPts ( )

protectedvirtual

Calculate coordinate at integration points.

Returns: Error code

Definition at line 252 of file VolumeElementForcesAndSourcesCore.cpp.

                                                                  {
  MoFEMFunctionBegin;
  // Get coords at Gauss points
  FTensor::Index<'i', 3> i;
 
  auto &shape_functions = dataH1.dataOnEntities[MBVERTEX][0].getN(NOBASE);
  double *shape_functions_ptr = &*shape_functions.data().begin();
  const size_t nb_base_functions = shape_functions.size2();
  const size_t nb_gauss_pts = gaussPts.size2();
  coordsAtGaussPts.resize(nb_gauss_pts, 3, false);
  coordsAtGaussPts.clear();
  FTensor::Tensor1<FTensor::PackPtr<double *, 3>, 3> t_coords_at_gauss_ptr(
      &coordsAtGaussPts(0, 0), &coordsAtGaussPts(0, 1),
      &coordsAtGaussPts(0, 2));
  FTensor::Tensor0<FTensor::PackPtr<double *, 1>> t_shape_functions(
      shape_functions_ptr);
  for (unsigned int gg = 0; gg != nb_gauss_pts; ++gg) {
    FTensor::Tensor1<FTensor::PackPtr<double *, 3>, 3> t_coords(
        &coords[0], &coords[1], &coords[2]);
    for (int bb = 0; bb != nb_base_functions; ++bb) {
      t_coords_at_gauss_ptr(i) += t_coords(i) * t_shape_functions;
      ++t_coords;
      ++t_shape_functions;
    };
    ++t_coords_at_gauss_ptr;
  }
  MoFEMFunctionReturn(0);
}

◆ calculateVolumeAndJacobian()

MoFEMErrorCode MoFEM::VolumeElementForcesAndSourcesCore::calculateVolumeAndJacobian ( )

protectedvirtual

Calculate element volume and Jacobian.

Note that at that point is assumed that geometry is exclusively defined by corner nodes.

Returns: Error code

Definition at line 195 of file VolumeElementForcesAndSourcesCore.cpp.

                                                                             {
  MoFEMFunctionBegin;
  const auto ent = numeredEntFiniteElementPtr->getEnt();
  const auto type = numeredEntFiniteElementPtr->getEntType();
  CHKERR mField.get_moab().get_connectivity(ent, conn, num_nodes, true);
  coords.resize(3 * num_nodes, false);
  CHKERR mField.get_moab().get_coords(conn, num_nodes, &*coords.data().begin());
 
  auto get_tet_t_diff_n = [&]() {
    return FTensor::Tensor1<FTensor::PackPtr<const double *, 3>, 3>(
        &Tools::diffShapeFunMBTET[0], &Tools::diffShapeFunMBTET[1],
        &Tools::diffShapeFunMBTET[2]);
  };
 
  auto get_hex_t_diff_n = [&]() {
    return FTensor::Tensor1<FTensor::PackPtr<const double *, 3>, 3>(
        &Tools::diffShapeFunMBHEXAtCenter[0],
        &Tools::diffShapeFunMBHEXAtCenter[1],
        &Tools::diffShapeFunMBHEXAtCenter[2]);
  };
 
  auto get_t_diff_n = [&]() {
    if (type == MBTET)
      return get_tet_t_diff_n();
    return get_hex_t_diff_n();
  };
 
  auto t_diff_n = get_t_diff_n();
 
  FTensor::Tensor1<FTensor::PackPtr<double *, 3>, 3> t_coords(
      &coords[0], &coords[1], &coords[2]);
  FTensor::Index<'i', 3> i;
  FTensor::Index<'j', 3> j;
  jAc.clear();
 
  for (size_t n = 0; n != num_nodes; ++n) {
    tJac(i, j) += t_coords(i) * t_diff_n(j);
    ++t_coords;
    ++t_diff_n;
  }
  CHKERR determinantTensor3by3(tJac, vOlume);
  CHKERR invertTensor3by3(tJac, vOlume, tInvJac);
 
  if (type == MBTET)
    vOlume *= G_TET_W1[0] / 6.;
 
#ifndef NDEBUG
  if (vOlume <= std::numeric_limits<double>::epsilon() || vOlume != vOlume) {
    MOFEM_LOG("SELF", Sev::warning) << "Volume is zero " << vOlume;
    MOFEM_LOG("SELF", Sev::warning) << "Coords " << coords << endl;
  }
#endif
 
  MoFEMFunctionReturn(0);
}

◆ getSpaceBaseAndOrderOnElement()

MoFEMErrorCode MoFEM::VolumeElementForcesAndSourcesCore::getSpaceBaseAndOrderOnElement ( )

protectedvirtual

Determine approximation space and order of base functions.

Returns: Error code

Definition at line 282 of file VolumeElementForcesAndSourcesCore.cpp.

                                                                 {
  MoFEMFunctionBegin;
 
  CHKERR getSpacesAndBaseOnEntities(dataH1);
  CHKERR getFaceNodes(dataH1);
 
  auto type = numeredEntFiniteElementPtr->getEntType();
  auto dim_type = CN::Dimension(type);
 
  auto get_data_on_ents = [&](auto lower_dim, auto space) {
    MoFEMFunctionBeginHot;
    auto data = dataOnElement[space];
    data->facesNodes = dataH1.facesNodes;
    data->facesNodesOrder = dataH1.facesNodesOrder;
    for (auto dd = dim_type; dd >= lower_dim; --dd) {
      int nb_ents = moab::CN::NumSubEntities(type, dd);
      for (int ii = 0; ii != nb_ents; ++ii) {
        auto sub_ent_type = moab::CN::SubEntityType(type, dd, ii);
        if ((dataH1.spacesOnEntities[sub_ent_type]).test(space)) {
          auto &data_on_ent = data->dataOnEntities[sub_ent_type];
          CHKERR getEntitySense(sub_ent_type, data_on_ent);
          CHKERR getEntityDataOrder(sub_ent_type, space, data_on_ent);
          data->spacesOnEntities[sub_ent_type].set(space);
        }
      }
    }
    MoFEMFunctionReturnHot(0);
  };
 
  CHKERR get_data_on_ents(1, H1);    // H1
  CHKERR get_data_on_ents(1, HCURL); // Hcurl
  CHKERR get_data_on_ents(2, HDIV);  // Hdiv
  CHKERR get_data_on_ents(3, L2);    // L2
 
  MoFEMFunctionReturn(0);
}

◆ operator()()

MoFEMErrorCode MoFEM::VolumeElementForcesAndSourcesCore::operator() ( )

virtual

Main operator function executed for each loop iteration.

This virtual function is called for every item (finite element, entity, etc.) in the loop. It is the core computation function typically used for:

Calculating element local matrices and vectors
Assembling contributions to global system
Element-level post-processing operations

Returns: Error code indicating success or failure

Reimplemented from MoFEM::ForcesAndSourcesCore.

Reimplemented in MoFEM::VolumeElementForcesAndSourcesCoreOnSide.

Definition at line 413 of file VolumeElementForcesAndSourcesCore.cpp.

                                                             {
  MoFEMFunctionBegin;
 
  const auto type = numeredEntFiniteElementPtr->getEntType();
  if (type != lastEvaluatedElementEntityType) {
    switch (type) {
    case MBTET:
      getElementPolynomialBase() =
          boost::shared_ptr<BaseFunction>(new TetPolynomialBase(this));
      break;
    case MBHEX:
      getElementPolynomialBase() =
          boost::shared_ptr<BaseFunction>(new HexPolynomialBase());
      break;
    default:
      MoFEMFunctionReturnHot(0);
    }
    CHKERR createDataOnElement(type);
    lastEvaluatedElementEntityType = type;
  }
 
  CHKERR calculateVolumeAndJacobian();
  CHKERR getSpaceBaseAndOrderOnElement();
  CHKERR setIntegrationPts();
  if (gaussPts.size2() == 0)
    MoFEMFunctionReturnHot(0);
  CHKERR calculateCoordinatesAtGaussPts();
  CHKERR calHierarchicalBaseFunctionsOnElement();
  CHKERR calBernsteinBezierBaseFunctionsOnElement();
 
  CHKERR transformBaseFunctions();
 
  // Iterate over operators
  CHKERR loopOverOperators();
 
  MoFEMFunctionReturn(0);
}

◆ setIntegrationPts()

MoFEMErrorCode MoFEM::VolumeElementForcesAndSourcesCore::setIntegrationPts ( )

protectedvirtual

Set integration points.

Returns: Error code

Definition at line 28 of file VolumeElementForcesAndSourcesCore.cpp.

                                                                    {
  MoFEMFunctionBegin;
 
  int order_data = getMaxDataOrder();
  int order_row = getMaxRowOrder();
  int order_col = getMaxColOrder();
  const auto type = numeredEntFiniteElementPtr->getEntType();
 
  auto get_rule_by_type = [&]() {
    switch (type) {
    case MBHEX:
      return getRule(order_row + 1, order_col + 1, order_data + 1);
    default:
      return getRule(order_row, order_col, order_data);
    }
  };
 
  const int rule = get_rule_by_type();
 
  auto calc_base_for_tet = [&]() {
    MoFEMFunctionBegin;
    const size_t nb_gauss_pts = gaussPts.size2();
    auto &base = dataH1.dataOnEntities[MBVERTEX][0].getN(NOBASE);
    auto &diff_base = dataH1.dataOnEntities[MBVERTEX][0].getDiffN(NOBASE);
    base.resize(nb_gauss_pts, 4, false);
    diff_base.resize(nb_gauss_pts, 12, false);
    CHKERR Tools::shapeFunMBTET(&*base.data().begin(), &gaussPts(0, 0),
                                &gaussPts(1, 0), &gaussPts(2, 0), nb_gauss_pts);
    double *diff_shape_ptr = &*diff_base.data().begin();
    for (int gg = 0; gg != nb_gauss_pts; ++gg) {
      for (int nn = 0; nn != 4; ++nn) {
        for (int dd = 0; dd != 3; ++dd, ++diff_shape_ptr) {
          *diff_shape_ptr = Tools::diffShapeFunMBTET[3 * nn + dd];
        }
      }
    }
    MoFEMFunctionReturn(0);
  };
 
  auto calc_base_for_hex = [&]() {
    MoFEMFunctionBegin;
    const size_t nb_gauss_pts = gaussPts.size2();
    auto &base = dataH1.dataOnEntities[MBVERTEX][0].getN(NOBASE);
    auto &diff_base = dataH1.dataOnEntities[MBVERTEX][0].getDiffN(NOBASE);
    base.resize(nb_gauss_pts, 8, false);
    diff_base.resize(nb_gauss_pts, 24, false);
    for (int gg = 0; gg != nb_gauss_pts; ++gg) {
      const double ksi = gaussPts(0, gg);
      const double zeta = gaussPts(1, gg);
      const double eta = gaussPts(2, gg);
      base(gg, 0) = N_MBHEX0(ksi, zeta, eta);
      base(gg, 1) = N_MBHEX1(ksi, zeta, eta);
      base(gg, 2) = N_MBHEX2(ksi, zeta, eta);
      base(gg, 3) = N_MBHEX3(ksi, zeta, eta);
      base(gg, 4) = N_MBHEX4(ksi, zeta, eta);
      base(gg, 5) = N_MBHEX5(ksi, zeta, eta);
      base(gg, 6) = N_MBHEX6(ksi, zeta, eta);
      base(gg, 7) = N_MBHEX7(ksi, zeta, eta);
      diff_base(gg, 0 * 3 + 0) = diffN_MBHEX0x(zeta, eta);
      diff_base(gg, 1 * 3 + 0) = diffN_MBHEX1x(zeta, eta);
      diff_base(gg, 2 * 3 + 0) = diffN_MBHEX2x(zeta, eta);
      diff_base(gg, 3 * 3 + 0) = diffN_MBHEX3x(zeta, eta);
      diff_base(gg, 4 * 3 + 0) = diffN_MBHEX4x(zeta, eta);
      diff_base(gg, 5 * 3 + 0) = diffN_MBHEX5x(zeta, eta);
      diff_base(gg, 6 * 3 + 0) = diffN_MBHEX6x(zeta, eta);
      diff_base(gg, 7 * 3 + 0) = diffN_MBHEX7x(zeta, eta);
      diff_base(gg, 0 * 3 + 1) = diffN_MBHEX0y(ksi, eta);
      diff_base(gg, 1 * 3 + 1) = diffN_MBHEX1y(ksi, eta);
      diff_base(gg, 2 * 3 + 1) = diffN_MBHEX2y(ksi, eta);
      diff_base(gg, 3 * 3 + 1) = diffN_MBHEX3y(ksi, eta);
      diff_base(gg, 4 * 3 + 1) = diffN_MBHEX4y(ksi, eta);
      diff_base(gg, 5 * 3 + 1) = diffN_MBHEX5y(ksi, eta);
      diff_base(gg, 6 * 3 + 1) = diffN_MBHEX6y(ksi, eta);
      diff_base(gg, 7 * 3 + 1) = diffN_MBHEX7y(ksi, eta);
      diff_base(gg, 0 * 3 + 2) = diffN_MBHEX0z(ksi, zeta);
      diff_base(gg, 1 * 3 + 2) = diffN_MBHEX1z(ksi, zeta);
      diff_base(gg, 2 * 3 + 2) = diffN_MBHEX2z(ksi, zeta);
      diff_base(gg, 3 * 3 + 2) = diffN_MBHEX3z(ksi, zeta);
      diff_base(gg, 4 * 3 + 2) = diffN_MBHEX4z(ksi, zeta);
      diff_base(gg, 5 * 3 + 2) = diffN_MBHEX5z(ksi, zeta);
      diff_base(gg, 6 * 3 + 2) = diffN_MBHEX6z(ksi, zeta);
      diff_base(gg, 7 * 3 + 2) = diffN_MBHEX7z(ksi, zeta);
    }
    MoFEMFunctionReturn(0);
  };
 
  auto set_integration_pts_for_hex = [&]() {
    MoFEMFunctionBegin;
    CHKERR Tools::outerProductOfEdgeIntegrationPtsForHex(gaussPts, rule, rule,
                                                         rule);
    MoFEMFunctionReturn(0);
  };
 
  auto set_integration_pts_for_tet = [&]() {
    MoFEMFunctionBegin;
    const auto xiao_rule =
        IntRules::XiaoGimbutas::getTetrahedronRule(rule);
    if (!xiao_rule) {
      SETERRQ(mField.get_comm(), MOFEM_DATA_INCONSISTENCY,
              "Xiao--Gimbutas tetrahedron rule is available for polynomial "
              "orders 0 to %d; requested %d",
              IntRules::XiaoGimbutas::tetrahedronRuleCount, rule);
    }
    if (xiao_rule->numBarycentricCoordinates != 4) {
      SETERRQ(mField.get_comm(), MOFEM_DATA_INCONSISTENCY,
              "wrong number of tetrahedron barycentric coordinates");
    }
 
    const size_t nb_gauss_pts = xiao_rule->numPoints;
    gaussPts.resize(4, nb_gauss_pts, false);
    cblas_dcopy(nb_gauss_pts, &xiao_rule->points[1], 4, &gaussPts(0, 0), 1);
    cblas_dcopy(nb_gauss_pts, &xiao_rule->points[2], 4, &gaussPts(1, 0), 1);
    cblas_dcopy(nb_gauss_pts, &xiao_rule->points[3], 4, &gaussPts(2, 0), 1);
    cblas_dcopy(nb_gauss_pts, xiao_rule->weights, 1, &gaussPts(3, 0), 1);
 
    auto &base = dataH1.dataOnEntities[MBVERTEX][0].getN(NOBASE);
    auto &diff_base = dataH1.dataOnEntities[MBVERTEX][0].getDiffN(NOBASE);
    base.resize(nb_gauss_pts, 4, false);
    diff_base.resize(nb_gauss_pts, 12, false);
    double *shape_ptr = &*base.data().begin();
    cblas_dcopy(4 * nb_gauss_pts, xiao_rule->points, 1, shape_ptr, 1);
    double *diff_shape_ptr = &*diff_base.data().begin();
    for (int gg = 0; gg != nb_gauss_pts; ++gg) {
      for (int nn = 0; nn != 4; ++nn) {
        for (int dd = 0; dd != 3; ++dd, ++diff_shape_ptr) {
          *diff_shape_ptr = Tools::diffShapeFunMBTET[3 * nn + dd];
        }
      }
    }
    MoFEMFunctionReturn(0);
  };
 
  if (rule >= 0) {
    switch (type) {
    case MBTET:
      CHKERR set_integration_pts_for_tet();
      break;
    case MBHEX:
      CHKERR set_integration_pts_for_hex();
      CHKERR calc_base_for_hex();
      break;
    default:
      SETERRQ(PETSC_COMM_SELF, MOFEM_NOT_IMPLEMENTED,
               "Element type not implemented: %d", type);
    }
  } else {
    // If rule is negative, set user defined integration points
    CHKERR setGaussPts(order_row, order_col, order_data);
    const size_t nb_gauss_pts = gaussPts.size2();
    if (nb_gauss_pts) {
      switch (type) {
      case MBTET: {
        CHKERR calc_base_for_tet();
      } break;
      case MBHEX:
        CHKERR calc_base_for_hex();
        break;
      default:
        SETERRQ(PETSC_COMM_SELF, MOFEM_NOT_IMPLEMENTED,
                 "Element type not implemented: %d", type);
      }
    }
  }
 
  MoFEMFunctionReturn(0);
}

◆ transformBaseFunctions()

MoFEMErrorCode MoFEM::VolumeElementForcesAndSourcesCore::transformBaseFunctions ( )

protectedvirtual

Transform base functions based on geometric element Jacobian.

This function apply transformation to base functions and its derivatives. For example when base functions for H-div are present the Piola-Transformation is applied to base functions and their derivatives.

Returns: Error code

Definition at line 319 of file VolumeElementForcesAndSourcesCore.cpp.

                                                                         {
  MoFEMFunctionBegin;
 
  if (numeredEntFiniteElementPtr->getEntType() == MBTET) {
    // OK that code is not nice.
    MatrixDouble new_diff_n;
    for (int b = AINSWORTH_LEGENDRE_BASE; b != LASTBASE; b++) {
      FTensor::Index<'i', 3> i;
      FieldApproximationBase base = static_cast<FieldApproximationBase>(b);
      EntitiesFieldData::EntData &data = dataH1.dataOnEntities[MBVERTEX][0];
      if ((data.getDiffN(base).size1() == 4) &&
          (data.getDiffN(base).size2() == 3)) {
        const size_t nb_gauss_pts = gaussPts.size2();
        const size_t nb_base_functions = 4;
        new_diff_n.resize(nb_gauss_pts, 3 * nb_base_functions, false);
        double *new_diff_n_ptr = &*new_diff_n.data().begin();
        FTensor::Tensor1<FTensor::PackPtr<double *, 3>, 3> t_new_diff_n(
            new_diff_n_ptr, &new_diff_n_ptr[1], &new_diff_n_ptr[2]);
        double *t_diff_n_ptr = &*data.getDiffN(base).data().begin();
        for (unsigned int gg = 0; gg != nb_gauss_pts; gg++) {
          FTensor::Tensor1<FTensor::PackPtr<double *, 3>, 3> t_diff_n(
              t_diff_n_ptr, &t_diff_n_ptr[1], &t_diff_n_ptr[2]);
          for (unsigned int bb = 0; bb != nb_base_functions; bb++) {
            t_new_diff_n(i) = t_diff_n(i);
            ++t_new_diff_n;
            ++t_diff_n;
          }
        }
        data.getDiffN(base).resize(new_diff_n.size1(), new_diff_n.size2(),
                                   false);
        data.getDiffN(base).swap(new_diff_n);
      }
    }
  }
 
  if (dataH1.spacesOnEntities[MBVERTEX].test(H1))
    CHKERR opSetInvJacH1.opRhs(dataH1);
 
  std::array<std::bitset<LASTSPACE>, 4> spaces_by_dim{
 
      std::bitset<LASTSPACE>(0), //
      std::bitset<LASTSPACE>(0), //
      std::bitset<LASTSPACE>(0), //
      std::bitset<LASTSPACE>(0)
 
  };
  for (auto type = MBEDGE; type != MBENTITYSET; ++type) {
    spaces_by_dim[CN::Dimension(type)] |= dataH1.spacesOnEntities[type];
  }
 
  if (
 
      spaces_by_dim[1].test(HCURL) || //
      spaces_by_dim[2].test(HCURL) || //
      spaces_by_dim[3].test(HCURL)
 
  ) {
    CHKERR opCovariantPiolaTransform.opRhs(dataHcurl);
    CHKERR opSetInvJacHdivAndHcurl.opRhs(dataHcurl);
  }
 
  if (spaces_by_dim[2].test(HDIV) || spaces_by_dim[3].test(HDIV)) {
    CHKERR opContravariantPiolaTransform.opRhs(dataHdiv);
    // Fix for tetrahedrons
    if (numeredEntFiniteElementPtr->getEntType() == MBTET) {
      for (int b = AINSWORTH_LEGENDRE_BASE; b != LASTBASE; b++) {
        FieldApproximationBase base = static_cast<FieldApproximationBase>(b);
        for (auto t : {MBTRI, MBTET}) {
          for (auto &d : dataHdiv.dataOnEntities[t]) {
            d.getN(base) /= 6;
            d.getDiffN(base) /= 6;
          }
        }
      }
    }
    CHKERR opSetInvJacHdivAndHcurl.opRhs(dataHdiv);
  }
 
  if (spaces_by_dim[3].test(L2)) {
    CHKERR opSetInvJacH1.opRhs(dataL2);
  }
 
  MoFEMFunctionReturn(0);
}