libMesh::DofMap Class Reference

This class handles the numbering of degrees of freedom on a mesh. More...

#include <dof_map.h>

Inheritance diagram for libMesh::DofMap:

Classes
class	AugmentSendList
	Abstract base class to be used to add user-defined parallel degree of freedom couplings. More...
class	AugmentSparsityPattern
	Abstract base class to be used to add user-defined implicit degree of freedom couplings. More...

Public Member Functions
	DofMap (const unsigned int sys_number, MeshBase &mesh)
	Constructor. More...
	~DofMap ()
	Destructor. More...
void	attach_matrix (SparseMatrix< Number > &matrix)
	Additional matrices may be handled with this DofMap. More...
bool	is_attached (SparseMatrix< Number > &matrix)
	Matrices should not be attached more than once. More...
void	distribute_dofs (MeshBase &)
	Distribute dofs on the current mesh. More...
void	compute_sparsity (const MeshBase &)
	Computes the sparsity pattern for the matrices corresponding to proc_id and sends that data to Linear Algebra packages for preallocation of sparse matrices. More...
void	clear_sparsity ()
	Clears the sparsity pattern. More...
void	remove_default_ghosting ()
	Remove any default ghosting functor(s). More...
void	add_default_ghosting ()
	Add the default functor(s) for coupling and algebraic ghosting. More...
void	add_coupling_functor (GhostingFunctor &coupling_functor, bool to_mesh=true)
	Adds a functor which can specify coupling requirements for creation of sparse matrices. More...
void	remove_coupling_functor (GhostingFunctor &coupling_functor)
	Removes a functor which was previously added to the set of coupling functors, from both this DofMap and from the underlying mesh. More...
std::set< GhostingFunctor * >::const_iterator	coupling_functors_begin () const
	Beginning of range of coupling functors. More...
std::set< GhostingFunctor * >::const_iterator	coupling_functors_end () const
	End of range of coupling functors. More...
DefaultCoupling &	default_coupling ()
	Default coupling functor. More...
void	add_algebraic_ghosting_functor (GhostingFunctor &evaluable_functor, bool to_mesh=true)
	Adds a functor which can specify algebraic ghosting requirements for use with distributed vectors. More...
void	remove_algebraic_ghosting_functor (GhostingFunctor &evaluable_functor)
	Removes a functor which was previously added to the set of algebraic ghosting functors, from both this DofMap and from the underlying mesh. More...
std::set< GhostingFunctor * >::const_iterator	algebraic_ghosting_functors_begin () const
	Beginning of range of algebraic ghosting functors. More...
std::set< GhostingFunctor * >::const_iterator	algebraic_ghosting_functors_end () const
	End of range of algebraic ghosting functors. More...
DefaultCoupling &	default_algebraic_ghosting ()
	Default algebraic ghosting functor. More...
void	attach_extra_sparsity_object (DofMap::AugmentSparsityPattern &asp)
	Attach an object to use to populate the sparsity pattern with extra entries. More...
void	attach_extra_sparsity_function (void(*func)(SparsityPattern::Graph &sparsity, std::vector< dof_id_type > &n_nz, std::vector< dof_id_type > &n_oz, void *), void *context=nullptr)
	Attach a function pointer to use as a callback to populate the sparsity pattern with extra entries. More...
void	attach_extra_send_list_object (DofMap::AugmentSendList &asl)
	Attach an object to populate the send_list with extra entries. More...
void	attach_extra_send_list_function (void(*func)(std::vector< dof_id_type > &, void *), void *context=nullptr)
	Attach a function pointer to use as a callback to populate the send_list with extra entries. More...
void	prepare_send_list ()
	Takes the _send_list vector (which may have duplicate entries) and sorts it. More...
const std::vector< dof_id_type > &	get_send_list () const
const std::vector< dof_id_type > &	get_n_nz () const
const std::vector< dof_id_type > &	get_n_oz () const
void	add_variable_group (const VariableGroup &var_group)
	Add an unknown of order order and finite element type type to the system of equations. More...
void	set_error_on_cyclic_constraint (bool error_on_cyclic_constraint)
	Specify whether or not we perform an extra (opt-mode enabled) check for cyclic constraints. More...
const VariableGroup &	variable_group (const unsigned int c) const
const Variable &	variable (const unsigned int c) const
Order	variable_order (const unsigned int c) const
Order	variable_group_order (const unsigned int vg) const
const FEType &	variable_type (const unsigned int c) const
const FEType &	variable_group_type (const unsigned int vg) const
unsigned int	n_variable_groups () const
unsigned int	n_variables () const
bool	has_blocked_representation () const
unsigned int	block_size () const
dof_id_type	n_dofs () const
dof_id_type	n_SCALAR_dofs () const
dof_id_type	n_local_dofs () const
dof_id_type	n_dofs_on_processor (const processor_id_type proc) const
dof_id_type	first_dof (const processor_id_type proc) const
dof_id_type	first_dof () const
dof_id_type	first_old_dof (const processor_id_type proc) const
dof_id_type	first_old_dof () const
dof_id_type	last_dof (const processor_id_type proc) const
dof_id_type	last_dof () const
dof_id_type	end_dof (const processor_id_type proc) const
dof_id_type	end_dof () const
processor_id_type	dof_owner (const dof_id_type dof) const
dof_id_type	end_old_dof (const processor_id_type proc) const
dof_id_type	end_old_dof () const
void	dof_indices (const Elem *const elem, std::vector< dof_id_type > &di) const
	Fills the vector di with the global degree of freedom indices for the element. More...
void	dof_indices (const Elem *const elem, std::vector< dof_id_type > &di, const unsigned int vn, int p_level=-12345) const
	Fills the vector di with the global degree of freedom indices for the element. More...
void	dof_indices (const Node *const node, std::vector< dof_id_type > &di) const
	Fills the vector di with the global degree of freedom indices for the node. More...
void	dof_indices (const Node *const node, std::vector< dof_id_type > &di, const unsigned int vn) const
	Fills the vector di with the global degree of freedom indices for the node. More...
void	SCALAR_dof_indices (std::vector< dof_id_type > &di, const unsigned int vn, const bool old_dofs=false) const
	Fills the vector di with the global degree of freedom indices corresponding to the SCALAR variable vn. More...
bool	semilocal_index (dof_id_type dof_index) const
bool	all_semilocal_indices (const std::vector< dof_id_type > &dof_indices) const
bool	local_index (dof_id_type dof_index) const
template<typename DofObjectSubclass >
bool	is_evaluable (const DofObjectSubclass &obj, unsigned int var_num=libMesh::invalid_uint) const
void	set_implicit_neighbor_dofs (bool implicit_neighbor_dofs)
	Allow the implicit_neighbor_dofs flag to be set programmatically. More...
bool	use_coupled_neighbor_dofs (const MeshBase &mesh) const
	Tells other library functions whether or not this problem includes coupling between dofs in neighboring cells, as can currently be specified on the command line or inferred from the use of all discontinuous variables. More...
void	extract_local_vector (const NumericVector< Number > &Ug, const std::vector< dof_id_type > &dof_indices, DenseVectorBase< Number > &Ue) const
	Builds the local element vector Ue from the global vector Ug, accounting for any constrained degrees of freedom. More...
void	local_variable_indices (std::vector< dof_id_type > &idx, const MeshBase &mesh, unsigned int var_num) const
	Fills an array of those dof indices which belong to the given variable number and live on the current processor. More...
dof_id_type	n_constrained_dofs () const
dof_id_type	n_local_constrained_dofs () const
dof_id_type	n_constrained_nodes () const
void	create_dof_constraints (const MeshBase &, Real time=0)
	Rebuilds the raw degree of freedom and DofObject constraints. More...
void	allgather_recursive_constraints (MeshBase &)
	Gathers constraint equation dependencies from other processors. More...
void	scatter_constraints (MeshBase &)
	Sends constraint equations to constraining processors. More...
void	gather_constraints (MeshBase &mesh, std::set< dof_id_type > &unexpanded_dofs, bool look_for_constrainees)
	Helper function for querying about constraint equations on other processors. More...
void	process_constraints (MeshBase &)
	Postprocesses any constrained degrees of freedom to be constrained only in terms of unconstrained dofs, then adds unconstrained dofs to the send_list and prepares that for use. More...
void	check_for_cyclic_constraints ()
	Throw an error if we detect and cyclic constraints, since these are not supported by libMesh and give erroneous results if they are present. More...
void	add_constraint_row (const dof_id_type dof_number, const DofConstraintRow &constraint_row, const Number constraint_rhs, const bool forbid_constraint_overwrite)
	Adds a copy of the user-defined row to the constraint matrix, using an inhomogeneous right-hand-side for the constraint equation. More...
void	add_adjoint_constraint_row (const unsigned int qoi_index, const dof_id_type dof_number, const DofConstraintRow &constraint_row, const Number constraint_rhs, const bool forbid_constraint_overwrite)
	Adds a copy of the user-defined row to the constraint matrix, using an inhomogeneous right-hand-side for the adjoint constraint equation. More...
void	add_constraint_row (const dof_id_type dof_number, const DofConstraintRow &constraint_row, const bool forbid_constraint_overwrite=true)
	Adds a copy of the user-defined row to the constraint matrix, using a homogeneous right-hand-side for the constraint equation. More...
DofConstraints::const_iterator	constraint_rows_begin () const
DofConstraints::const_iterator	constraint_rows_end () const
void	stash_dof_constraints ()
void	unstash_dof_constraints ()
NodeConstraints::const_iterator	node_constraint_rows_begin () const
NodeConstraints::const_iterator	node_constraint_rows_end () const
bool	is_constrained_dof (const dof_id_type dof) const
bool	has_heterogenous_adjoint_constraints (const unsigned int qoi_num) const
Number	has_heterogenous_adjoint_constraint (const unsigned int qoi_num, const dof_id_type dof) const
DofConstraintValueMap &	get_primal_constraint_values ()
bool	is_constrained_node (const Node *node) const
void	print_dof_constraints (std::ostream &os=libMesh::out, bool print_nonlocal=false) const
	Prints (from processor 0) all DoF and Node constraints. More...
std::string	get_local_constraints (bool print_nonlocal=false) const
	Gets a string reporting all DoF and Node constraints local to this processor. More...
std::pair< Real, Real >	max_constraint_error (const System &system, NumericVector< Number > *v=nullptr) const
	Tests the constrained degrees of freedom on the numeric vector v, which represents a solution defined on the mesh, returning a pair whose first entry is the maximum absolute error on a constrained DoF and whose second entry is the maximum relative error. More...
void	constrain_element_matrix (DenseMatrix< Number > &matrix, std::vector< dof_id_type > &elem_dofs, bool asymmetric_constraint_rows=true) const
	Constrains the element matrix. More...
void	constrain_element_matrix (DenseMatrix< Number > &matrix, std::vector< dof_id_type > &row_dofs, std::vector< dof_id_type > &col_dofs, bool asymmetric_constraint_rows=true) const
	Constrains the element matrix. More...
void	constrain_element_vector (DenseVector< Number > &rhs, std::vector< dof_id_type > &dofs, bool asymmetric_constraint_rows=true) const
	Constrains the element vector. More...
void	constrain_element_matrix_and_vector (DenseMatrix< Number > &matrix, DenseVector< Number > &rhs, std::vector< dof_id_type > &elem_dofs, bool asymmetric_constraint_rows=true) const
	Constrains the element matrix and vector. More...
void	heterogenously_constrain_element_matrix_and_vector (DenseMatrix< Number > &matrix, DenseVector< Number > &rhs, std::vector< dof_id_type > &elem_dofs, bool asymmetric_constraint_rows=true, int qoi_index=-1) const
	Constrains the element matrix and vector. More...
void	heterogenously_constrain_element_vector (const DenseMatrix< Number > &matrix, DenseVector< Number > &rhs, std::vector< dof_id_type > &elem_dofs, bool asymmetric_constraint_rows=true, int qoi_index=-1) const
	Constrains the element vector. More...
void	constrain_element_dyad_matrix (DenseVector< Number > &v, DenseVector< Number > &w, std::vector< dof_id_type > &row_dofs, bool asymmetric_constraint_rows=true) const
	Constrains a dyadic element matrix B = v w'. More...
void	constrain_nothing (std::vector< dof_id_type > &dofs) const
	Does not actually constrain anything, but modifies dofs in the same way as any of the constrain functions would do, i.e. More...
void	enforce_constraints_exactly (const System &system, NumericVector< Number > *v=nullptr, bool homogeneous=false) const
	Constrains the numeric vector v, which represents a solution defined on the mesh. More...
void	enforce_adjoint_constraints_exactly (NumericVector< Number > &v, unsigned int q) const
	Heterogenously constrains the numeric vector v, which represents an adjoint solution defined on the mesh for quantity fo interest q. More...
void	enforce_constraints_on_residual (const NonlinearImplicitSystem &system, NumericVector< Number > *rhs, NumericVector< Number > const *solution, bool homogeneous=true) const
void	enforce_constraints_on_jacobian (const NonlinearImplicitSystem &system, SparseMatrix< Number > *jac) const
void	add_periodic_boundary (const PeriodicBoundaryBase &periodic_boundary)
	Adds a copy of the specified periodic boundary to the system. More...
void	add_periodic_boundary (const PeriodicBoundaryBase &boundary, const PeriodicBoundaryBase &inverse_boundary)
	Add a periodic boundary pair. More...
bool	is_periodic_boundary (const boundary_id_type boundaryid) const
PeriodicBoundaries *	get_periodic_boundaries ()
void	add_dirichlet_boundary (const DirichletBoundary &dirichlet_boundary)
	Adds a copy of the specified Dirichlet boundary to the system. More...
void	add_adjoint_dirichlet_boundary (const DirichletBoundary &dirichlet_boundary, unsigned int q)
	Adds a copy of the specified Dirichlet boundary to the system, corresponding to the adjoint problem defined by Quantity of Interest q. More...
void	remove_dirichlet_boundary (const DirichletBoundary &dirichlet_boundary)
	Removes the specified Dirichlet boundary from the system. More...
void	remove_adjoint_dirichlet_boundary (const DirichletBoundary &dirichlet_boundary, unsigned int q)
	Removes from the system the specified Dirichlet boundary for the adjoint equation defined by Quantity of interest index q. More...
const DirichletBoundaries *	get_dirichlet_boundaries () const
DirichletBoundaries *	get_dirichlet_boundaries ()
bool	has_adjoint_dirichlet_boundaries (unsigned int q) const
const DirichletBoundaries *	get_adjoint_dirichlet_boundaries (unsigned int q) const
DirichletBoundaries *	get_adjoint_dirichlet_boundaries (unsigned int q)
void	old_dof_indices (const Elem *const elem, std::vector< dof_id_type > &di, const unsigned int vn=libMesh::invalid_uint) const
	After a mesh is refined and repartitioned it is possible that the _send_list will need to be augmented. More...
dof_id_type	n_old_dofs () const
void	constrain_p_dofs (unsigned int var, const Elem *elem, unsigned int s, unsigned int p)
	Constrains degrees of freedom on side s of element elem which correspond to variable number var and to p refinement levels above p. More...
void	reinit (MeshBase &mesh)
	Reinitialize the underlying data structures conformal to the current mesh. More...
void	clear ()
	Free all new memory associated with the object, but restore its original state, with the mesh pointer and any default ghosting. More...
void	print_info (std::ostream &os=libMesh::out) const
	Prints summary info about the sparsity bandwidth and constraints. More...
std::string	get_info () const
	Gets summary info about the sparsity bandwidth and constraints. More...
unsigned int	sys_number () const
const Parallel::Communicator &	comm () const
processor_id_type	n_processors () const
processor_id_type	processor_id () const

Static Public Member Functions
static std::string	get_info ()
	Gets a string containing the reference information. More...
static void	print_info (std::ostream &out=libMesh::out)
	Prints the reference information, by default to libMesh::out. More...
static unsigned int	n_objects ()
	Prints the number of outstanding (created, but not yet destroyed) objects. More...
static void	enable_print_counter_info ()
	Methods to enable/disable the reference counter output from print_info() More...
static void	disable_print_counter_info ()

Public Attributes
CouplingMatrix *	_dof_coupling
	Degree of freedom coupling. More...

Protected Types
typedef std::map< std::string, std::pair< unsigned int, unsigned int > >	Counts
	Data structure to log the information. More...

Protected Member Functions
void	increment_constructor_count (const std::string &name)
	Increments the construction counter. More...
void	increment_destructor_count (const std::string &name)
	Increments the destruction counter. More...

Protected Attributes
const Parallel::Communicator &	_communicator

Static Protected Attributes
static Counts	_counts
	Actually holds the data. More...
static Threads::atomic< unsigned int >	_n_objects
	The number of objects. More...
static Threads::spin_mutex	_mutex
	Mutual exclusion object to enable thread-safe reference counting. More...
static bool	_enable_print_counter
	Flag to control whether reference count information is printed when print_info is called. More...

Private Types
typedef DofObject *(DofMap::*	dofobject_accessor) (MeshBase &mesh, dof_id_type i) const
	A member function type like node_ptr() or elem_ptr(). More...

Private Member Functions
void	_dof_indices (const Elem &elem, int p_level, std::vector< dof_id_type > &di, const unsigned int vg, const unsigned int vig, const Node *const *nodes, unsigned int n_nodes #ifdef DEBUG, const unsigned int v, std::size_t &tot_size #endif) const
	Helper function that gets the dof indices on the current element for a non-SCALAR type variable, where the variable is identified by its variable group number vg and its offset vig from the first variable in that group. More...
std::unique_ptr< SparsityPattern::Build >	build_sparsity (const MeshBase &mesh) const
	Builds a sparsity pattern. More...
void	invalidate_dofs (MeshBase &mesh) const
	Invalidates all active DofObject dofs for this system. More...
DofObject *	node_ptr (MeshBase &mesh, dof_id_type i) const
DofObject *	elem_ptr (MeshBase &mesh, dof_id_type i) const
template<typename iterator_type >
void	set_nonlocal_dof_objects (iterator_type objects_begin, iterator_type objects_end, MeshBase &mesh, dofobject_accessor objects)
	Helper function for distributing dofs in parallel. More...
void	distribute_local_dofs_var_major (dof_id_type &next_free_dof, MeshBase &mesh)
	Distributes the global degrees of freedom, for dofs on this processor. More...
void	distribute_local_dofs_node_major (dof_id_type &next_free_dof, MeshBase &mesh)
	Distributes the global degrees of freedom for dofs on this processor. More...
void	add_neighbors_to_send_list (MeshBase &mesh)
	Adds entries to the _send_list vector corresponding to DoFs on elements neighboring the current processor. More...
void	build_constraint_matrix (DenseMatrix< Number > &C, std::vector< dof_id_type > &elem_dofs, const bool called_recursively=false) const
	Build the constraint matrix C associated with the element degree of freedom indices elem_dofs. More...
void	build_constraint_matrix_and_vector (DenseMatrix< Number > &C, DenseVector< Number > &H, std::vector< dof_id_type > &elem_dofs, int qoi_index=-1, const bool called_recursively=false) const
	Build the constraint matrix C and the forcing vector H associated with the element degree of freedom indices elem_dofs. More...
void	find_connected_dofs (std::vector< dof_id_type > &elem_dofs) const
	Finds all the DOFS associated with the element DOFs elem_dofs. More...
void	find_connected_dof_objects (std::vector< const DofObject *> &objs) const
	Finds all the DofObjects associated with the set in objs. More...
void	add_constraints_to_send_list ()
	Adds entries to the _send_list vector corresponding to DoFs which are dependencies for constraint equations on the current processor. More...
void	check_dirichlet_bcid_consistency (const MeshBase &mesh, const DirichletBoundary &boundary) const
	Check that all the ids in dirichlet_bcids are actually present in the mesh. More...

Static Private Member Functions
static void	merge_ghost_functor_outputs (GhostingFunctor::map_type &elements_to_ghost, std::set< CouplingMatrix *> &temporary_coupling_matrices, const std::set< GhostingFunctor *>::iterator &gf_begin, const std::set< GhostingFunctor *>::iterator &gf_end, const MeshBase::const_element_iterator &elems_begin, const MeshBase::const_element_iterator &elems_end, processor_id_type p)

Private Attributes
bool	_error_on_cyclic_constraint
	This flag indicates whether or not we do an opt-mode check for the presence of cyclic constraints. More...
std::vector< Variable >	_variables
	The finite element type for each variable. More...
std::vector< VariableGroup >	_variable_groups
	The finite element type for each variable group. More...
std::vector< unsigned int >	_variable_group_numbers
	The variable group number for each variable. More...
const unsigned int	_sys_number
	The number of the system we manage DOFs for. More...
MeshBase &	_mesh
	The mesh that system uses. More...
std::vector< SparseMatrix< Number > *>	_matrices
	Additional matrices handled by this object. More...
std::vector< dof_id_type >	_first_df
	First DOF index on processor p. More...
std::vector< dof_id_type >	_end_df
	Last DOF index (plus 1) on processor p. More...
std::vector< dof_id_type >	_first_scalar_df
	First DOF index for SCALAR variable v, or garbage for non-SCALAR variable v. More...
std::vector< dof_id_type >	_send_list
	A list containing all the global DOF indices that affect the solution on my processor. More...
AugmentSparsityPattern *	_augment_sparsity_pattern
	Function object to call to add extra entries to the sparsity pattern. More...
void(*	_extra_sparsity_function )(SparsityPattern::Graph &, std::vector< dof_id_type > &n_nz, std::vector< dof_id_type > &n_oz, void *)
	A function pointer to a function to call to add extra entries to the sparsity pattern. More...
void *	_extra_sparsity_context
	A pointer associated with the extra sparsity that can optionally be passed in. More...
AugmentSendList *	_augment_send_list
	Function object to call to add extra entries to the send list. More...
void(*	_extra_send_list_function )(std::vector< dof_id_type > &, void *)
	A function pointer to a function to call to add extra entries to the send list. More...
void *	_extra_send_list_context
	A pointer associated with the extra send list that can optionally be passed in. More...
std::unique_ptr< DefaultCoupling >	_default_coupling
	The default coupling GhostingFunctor, used to implement standard libMesh sparsity pattern construction. More...
std::unique_ptr< DefaultCoupling >	_default_evaluating
	The default algebraic GhostingFunctor, used to implement standard libMesh send_list construction. More...
std::set< GhostingFunctor * >	_algebraic_ghosting_functors
	The list of all GhostingFunctor objects to be used when distributing ghosted vectors. More...
std::set< GhostingFunctor * >	_coupling_functors
	The list of all GhostingFunctor objects to be used when coupling degrees of freedom in matrix sparsity patterns. More...
bool	need_full_sparsity_pattern
	Default false; set to true if any attached matrix requires a full sparsity pattern. More...
std::unique_ptr< SparsityPattern::Build >	_sp
	The sparsity pattern of the global matrix, kept around if it might be needed by future additions of the same type of matrix. More...
std::vector< dof_id_type > *	_n_nz
	The number of on-processor nonzeros in my portion of the global matrix. More...
std::vector< dof_id_type > *	_n_oz
	The number of off-processor nonzeros in my portion of the global matrix; allocated similar to _n_nz. More...
dof_id_type	_n_dfs
	Total number of degrees of freedom. More...
dof_id_type	_n_SCALAR_dofs
	The total number of SCALAR dofs associated to all SCALAR variables. More...
dof_id_type	_n_old_dfs
	Total number of degrees of freedom on old dof objects. More...
std::vector< dof_id_type >	_first_old_df
	First old DOF index on processor p. More...
std::vector< dof_id_type >	_end_old_df
	Last old DOF index (plus 1) on processor p. More...
std::vector< dof_id_type >	_first_old_scalar_df
	First old DOF index for SCALAR variable v, or garbage for non-SCALAR variable v. More...
DofConstraints	_dof_constraints
	Data structure containing DOF constraints. More...
DofConstraints	_stashed_dof_constraints
DofConstraintValueMap	_primal_constraint_values
AdjointDofConstraintValues	_adjoint_constraint_values
NodeConstraints	_node_constraints
	Data structure containing DofObject constraints. More...
std::unique_ptr< PeriodicBoundaries >	_periodic_boundaries
	Data structure containing periodic boundaries. More...
std::unique_ptr< DirichletBoundaries >	_dirichlet_boundaries
	Data structure containing Dirichlet functions. More...
std::vector< DirichletBoundaries * >	_adjoint_dirichlet_boundaries
	Data structure containing Dirichlet functions. More...
bool	_implicit_neighbor_dofs_initialized
	Bools to indicate if we override the –implicit_neighbor_dofs commandline options. More...
bool	_implicit_neighbor_dofs

Friends
class	SparsityPattern::Build

Detailed Description

This class handles the numbering of degrees of freedom on a mesh.

For systems of equations the class supports a fixed number of variables. The degrees of freedom are numbered such that sequential, contiguous blocks belong to distinct processors. This is so that the resulting data structures will work well with parallel linear algebra packages.

Author

Benjamin S. Kirk

Date

2002-2007 Manages the degrees of freedom (DOFs) in a simulation.

Definition at line 177 of file dof_map.h.

Member Typedef Documentation

Counts

typedef std::map<std::string, std::pair<unsigned int, unsigned int> > libMesh::ReferenceCounter::Counts

protectedinherited

Data structure to log the information.

The log is identified by the class name.

Definition at line 117 of file reference_counter.h.

dofobject_accessor

typedef DofObject*(DofMap::* libMesh::DofMap::dofobject_accessor) (MeshBase &mesh, dof_id_type i) const

private

A member function type like node_ptr() or elem_ptr().

Definition at line 1384 of file dof_map.h.

Constructor & Destructor Documentation

DofMap()

libMesh::DofMap::DofMap ( const unsigned int  sys_number, MeshBase &  mesh  )

explicit

Constructor.

Requires the number of the system for which we will be numbering degrees of freedom & the parent object we are contained in, which defines our communication space.

~DofMap()

libMesh::DofMap::~DofMap

(

)

Destructor.

Member Function Documentation

_dof_indices()

void libMesh::DofMap::_dof_indices ( const Elem &  elem, int  p_level, std::vector< dof_id_type > &  di, const unsigned int  vg, const unsigned int  vig, const Node *const *  nodes, unsigned int n_nodes #ifdef  DEBUG, const unsigned int  v, std::size_t &tot_size #  endif  ) const

private

Helper function that gets the dof indices on the current element for a non-SCALAR type variable, where the variable is identified by its variable group number vg and its offset vig from the first variable in that group.

In DEBUG mode, the tot_size parameter will add up the total number of dof indices that should have been added to di, and v will be the variable number corresponding to vg and vig.

add_adjoint_constraint_row()

void libMesh::DofMap::add_adjoint_constraint_row	(	const unsigned int	qoi_index,
		const dof_id_type	dof_number,
		const DofConstraintRow &	constraint_row,
		const Number	constraint_rhs,
		const bool	forbid_constraint_overwrite
	)

Adds a copy of the user-defined row to the constraint matrix, using an inhomogeneous right-hand-side for the adjoint constraint equation.

forbid_constraint_overwrite here only tests for overwriting the rhs. This method should only be used when an equivalent constraint (with a potentially different rhs) already exists for the primal problem.

add_adjoint_dirichlet_boundary()

void libMesh::DofMap::add_adjoint_dirichlet_boundary	(	const DirichletBoundary &	dirichlet_boundary,
		unsigned int	q
	)

Adds a copy of the specified Dirichlet boundary to the system, corresponding to the adjoint problem defined by Quantity of Interest q.

add_algebraic_ghosting_functor()

void libMesh::DofMap::add_algebraic_ghosting_functor	(	GhostingFunctor &	evaluable_functor,
		bool	to_mesh = true
	)

Adds a functor which can specify algebraic ghosting requirements for use with distributed vectors.

Degrees of freedom on other processors which match the elements and variables returned by these functors will be added to the send_list, and the elements on other processors will be ghosted on a distributed mesh, so that the elements can always be found and the solutions on them will always be evaluable.

GhostingFunctor memory must be managed by the code which calls this function; the GhostingFunctor lifetime is expected to extend until either the functor is removed or the DofMap is destructed.

When to_mesh is true, the coupling_functor is also added to our associated mesh, to ensure that evaluable elements do not get lost during mesh distribution. (if evaluable elements were already lost there's no getting them back after the fact, sorry)

If to_mesh is false, no change to mesh ghosting is made; the Mesh must already have ghosting functor(s) specifying a superset of evaluable_functor or this is a horrible bug.

add_constraint_row() [1/2]

void libMesh::DofMap::add_constraint_row	(	const dof_id_type	dof_number,
		const DofConstraintRow &	constraint_row,
		const Number	constraint_rhs,
		const bool	forbid_constraint_overwrite
	)

Adds a copy of the user-defined row to the constraint matrix, using an inhomogeneous right-hand-side for the constraint equation.

Referenced by add_constraint_row().

add_constraint_row() [2/2]

void libMesh::DofMap::add_constraint_row	(	const dof_id_type	dof_number,
		const DofConstraintRow &	constraint_row,
		const bool	forbid_constraint_overwrite = true
	)

Adds a copy of the user-defined row to the constraint matrix, using a homogeneous right-hand-side for the constraint equation.

By default, produces an error if the DOF was already constrained.

Definition at line 895 of file dof_map.h.

References add_constraint_row().

  { add_constraint_row(dof_number, constraint_row, 0., forbid_constraint_overwrite); }

add_constraints_to_send_list()

void libMesh::DofMap::add_constraints_to_send_list ( )

private

Adds entries to the _send_list vector corresponding to DoFs which are dependencies for constraint equations on the current processor.

add_coupling_functor()

void libMesh::DofMap::add_coupling_functor	(	GhostingFunctor &	coupling_functor,
		bool	to_mesh = true
	)

Adds a functor which can specify coupling requirements for creation of sparse matrices.

Degree of freedom pairs which match the elements and variables returned by these functors will be added to the sparsity pattern, and the degrees of freedom which live on other processors will be added to the send_list for use on ghosted vectors, and the elements which live on other processors will be ghosted on a distributed mesh.

GhostingFunctor memory must be managed by the code which calls this function; the GhostingFunctor lifetime is expected to extend until either the functor is removed or the DofMap is destructed.

When to_mesh is true, the coupling_functor is also added to our associated mesh, to ensure that coupled elements do not get lost during mesh distribution. (if coupled elements were already lost there's no getting them back after the fact, sorry)

If to_mesh is false, no change to mesh ghosting is made; the Mesh must already have ghosting functor(s) specifying a superset of coupling_functor or this is a horrible bug.

add_default_ghosting()

void libMesh::DofMap::add_default_ghosting

(

)

Add the default functor(s) for coupling and algebraic ghosting.

User-added ghosting functors will be unaffected.

add_dirichlet_boundary()

void libMesh::DofMap::add_dirichlet_boundary

(

const DirichletBoundary &

dirichlet_boundary

)

Adds a copy of the specified Dirichlet boundary to the system.

Referenced by SimpleRBConstruction::init_data().

add_neighbors_to_send_list()

void libMesh::DofMap::add_neighbors_to_send_list ( MeshBase &  mesh )

private

Adds entries to the _send_list vector corresponding to DoFs on elements neighboring the current processor.

add_periodic_boundary() [1/2]

void libMesh::DofMap::add_periodic_boundary

(

const PeriodicBoundaryBase &

periodic_boundary

)

Adds a copy of the specified periodic boundary to the system.

add_periodic_boundary() [2/2]

void libMesh::DofMap::add_periodic_boundary	(	const PeriodicBoundaryBase &	boundary,
		const PeriodicBoundaryBase &	inverse_boundary
	)

Add a periodic boundary pair.

Parameters

boundary	- primary boundary
inverse_boundary	- inverse boundary

add_variable_group()

void libMesh::DofMap::add_variable_group

(

const VariableGroup &

var_group

)

Add an unknown of order order and finite element type type to the system of equations.

Add a group of unknowns of order order and finite element type type to the system of equations.

algebraic_ghosting_functors_begin()

std::set<GhostingFunctor *>::const_iterator libMesh::DofMap::algebraic_ghosting_functors_begin

(

)

const

Beginning of range of algebraic ghosting functors.

Definition at line 368 of file dof_map.h.

References _algebraic_ghosting_functors.

  { return _algebraic_ghosting_functors.begin(); }

algebraic_ghosting_functors_end()

std::set<GhostingFunctor *>::const_iterator libMesh::DofMap::algebraic_ghosting_functors_end

(

)

const

End of range of algebraic ghosting functors.

Definition at line 374 of file dof_map.h.

References _algebraic_ghosting_functors.

  { return _algebraic_ghosting_functors.end(); }

all_semilocal_indices()

bool libMesh::DofMap::all_semilocal_indices

(

const std::vector< dof_id_type > &

dof_indices

)

const

Returns

true if all degree of freedom indices in dof_indices are either local indices or in the send_list.

Note

This is an O(logN) operation for a send_list of size N; we don't cache enough information for O(1) right now.

allgather_recursive_constraints()

void libMesh::DofMap::allgather_recursive_constraints

(

MeshBase &

)

Gathers constraint equation dependencies from other processors.

attach_extra_send_list_function()

void libMesh::DofMap::attach_extra_send_list_function	(	void(*)(std::vector< dof_id_type > &, void *)	func,
		void *	context = nullptr
	)

Attach a function pointer to use as a callback to populate the send_list with extra entries.

Definition at line 430 of file dof_map.h.

References _extra_send_list_context, and _extra_send_list_function.

  { _extra_send_list_function = func; _extra_send_list_context = context; }

attach_extra_send_list_object()

void libMesh::DofMap::attach_extra_send_list_object

(

DofMap::AugmentSendList &

asl

)

Attach an object to populate the send_list with extra entries.

This should only add to the send list, but no checking is done to enforce this behavior.

This is an advanced function... use at your own peril!

Definition at line 421 of file dof_map.h.

References _augment_send_list.

  {
    _augment_send_list = &asl;
  }

attach_extra_sparsity_function()

void libMesh::DofMap::attach_extra_sparsity_function	(	void(*)(SparsityPattern::Graph &sparsity, std::vector< dof_id_type > &n_nz, std::vector< dof_id_type > &n_oz, void *)	func,
		void *	context = nullptr
	)

Attach a function pointer to use as a callback to populate the sparsity pattern with extra entries.

Care must be taken that when adding entries they are sorted into the Rows

Further, you must modify n_nz and n_oz properly!

This is an advanced function... use at your own peril!

Definition at line 407 of file dof_map.h.

References _extra_sparsity_context, and _extra_sparsity_function.

  { _extra_sparsity_function = func; _extra_sparsity_context = context; }

attach_extra_sparsity_object()

void libMesh::DofMap::attach_extra_sparsity_object

(

DofMap::AugmentSparsityPattern &

asp

)

Attach an object to use to populate the sparsity pattern with extra entries.

Care must be taken that when adding entries they are sorted into the Rows

Further, you must modify n_nz and n_oz properly!

This is an advanced function... use at your own peril!

Definition at line 392 of file dof_map.h.

References _augment_sparsity_pattern.

  {
    _augment_sparsity_pattern = &asp;
  }

attach_matrix()

void libMesh::DofMap::attach_matrix

(

SparseMatrix< Number > &

matrix

)

Additional matrices may be handled with this DofMap.

They are initialized to the same sparsity structure as the major matrix.

block_size()

unsigned int libMesh::DofMap::block_size

(

)

const

Returns

The block size, if the variables are amenable to block storage. Otherwise 1.

Definition at line 563 of file dof_map.h.

References has_blocked_representation(), and n_variables().

  {
#ifdef LIBMESH_ENABLE_BLOCKED_STORAGE
    return (this->has_blocked_representation() ? this->n_variables() : 1);
#else
    return 1;
#endif
  }

build_constraint_matrix()

void libMesh::DofMap::build_constraint_matrix ( DenseMatrix< Number > &  C, std::vector< dof_id_type > &  elem_dofs, const bool  called_recursively = false  ) const

private

Build the constraint matrix C associated with the element degree of freedom indices elem_dofs.

The optional parameter called_recursively should be left at the default value false. This is used to handle the special case of an element's degrees of freedom being constrained in terms of other, local degrees of freedom. The usual case is for an elements DOFs to be constrained by some other, external DOFs.

build_constraint_matrix_and_vector()

void libMesh::DofMap::build_constraint_matrix_and_vector ( DenseMatrix< Number > &  C, DenseVector< Number > &  H, std::vector< dof_id_type > &  elem_dofs, int  qoi_index = -1, const bool  called_recursively = false  ) const

private

Build the constraint matrix C and the forcing vector H associated with the element degree of freedom indices elem_dofs.

The optional parameter called_recursively should be left at the default value false. This is used to handle the special case of an element's degrees of freedom being constrained in terms of other, local degrees of freedom. The usual case is for an elements DOFs to be constrained by some other, external DOFs and/or Dirichlet conditions.

The forcing vector will depend on which solution's heterogenous constraints are being applied. For the default qoi_index this will be the primal solution; for qoi_index >= 0 the corresponding adjoint solution's constraints will be used.

build_sparsity()

std::unique_ptr<SparsityPattern::Build> libMesh::DofMap::build_sparsity ( const MeshBase &  mesh ) const

private

Builds a sparsity pattern.

check_dirichlet_bcid_consistency()

void libMesh::DofMap::check_dirichlet_bcid_consistency ( const MeshBase &  mesh, const DirichletBoundary &  boundary  ) const

private

Check that all the ids in dirichlet_bcids are actually present in the mesh.

If not, this will throw an error.

check_for_cyclic_constraints()

void libMesh::DofMap::check_for_cyclic_constraints

(

)

Throw an error if we detect and cyclic constraints, since these are not supported by libMesh and give erroneous results if they are present.

clear()

void libMesh::DofMap::clear

(

)

Free all new memory associated with the object, but restore its original state, with the mesh pointer and any default ghosting.

clear_sparsity()

void libMesh::DofMap::clear_sparsity

(

)

Clears the sparsity pattern.

comm()

const Parallel::Communicator& libMesh::ParallelObject::comm ( ) const

inherited

Returns

A reference to the Parallel::Communicator object used by this mesh.

Definition at line 89 of file parallel_object.h.

References libMesh::ParallelObject::_communicator.

Referenced by libMesh::EpetraVector< T >::EpetraVector(), libMesh::Parallel::sync_element_data_by_parent_id(), libMesh::Parallel::sync_node_data_by_element_id(), and libMesh::Parallel::sync_node_data_by_element_id_once().

  { return _communicator; }

compute_sparsity()

void libMesh::DofMap::compute_sparsity

(

const MeshBase &

)

Computes the sparsity pattern for the matrices corresponding to proc_id and sends that data to Linear Algebra packages for preallocation of sparse matrices.

constrain_element_dyad_matrix()

void libMesh::DofMap::constrain_element_dyad_matrix	(	DenseVector< Number > &	v,
		DenseVector< Number > &	w,
		std::vector< dof_id_type > &	row_dofs,
		bool	asymmetric_constraint_rows = true
	)		const

Constrains a dyadic element matrix B = v w'.

This method requires the element matrix to be square, in which case the elem_dofs correspond to the global DOF indices of both the rows and columns of the element matrix. For this case the rows and columns of the matrix necessarily correspond to variables of the same approximation order.

Definition at line 1914 of file dof_map.h.

                                                               {}

constrain_element_matrix() [1/2]

void libMesh::DofMap::constrain_element_matrix	(	DenseMatrix< Number > &	matrix,
		std::vector< dof_id_type > &	elem_dofs,
		bool	asymmetric_constraint_rows = true
	)		const

Constrains the element matrix.

This method requires the element matrix to be square, in which case the elem_dofs correspond to the global DOF indices of both the rows and columns of the element matrix. For this case the rows and columns of the matrix necessarily correspond to variables of the same approximation order.

If asymmetric_constraint_rows is set to true (as it is by default), constraint row equations will be reinforced in a way which breaks matrix symmetry but makes inexact linear solver solutions more likely to satisfy hanging node constraints.

Definition at line 1896 of file dof_map.h.

                                                          {}

constrain_element_matrix() [2/2]

void libMesh::DofMap::constrain_element_matrix	(	DenseMatrix< Number > &	matrix,
		std::vector< dof_id_type > &	row_dofs,
		std::vector< dof_id_type > &	col_dofs,
		bool	asymmetric_constraint_rows = true
	)		const

Constrains the element matrix.

This method allows the element matrix to be non-square, in which case the row_dofs and col_dofs may be of different size and correspond to variables approximated in different spaces.

Definition at line 1900 of file dof_map.h.

                                                          {}

constrain_element_matrix_and_vector()

void libMesh::DofMap::constrain_element_matrix_and_vector	(	DenseMatrix< Number > &	matrix,
		DenseVector< Number > &	rhs,
		std::vector< dof_id_type > &	elem_dofs,
		bool	asymmetric_constraint_rows = true
	)		const

Constrains the element matrix and vector.

This method requires the element matrix to be square, in which case the elem_dofs correspond to the global DOF indices of both the rows and columns of the element matrix. For this case the rows and columns of the matrix necessarily correspond to variables of the same approximation order.

Definition at line 1909 of file dof_map.h.

                                                                     {}

constrain_element_vector()

void libMesh::DofMap::constrain_element_vector	(	DenseVector< Number > &	rhs,
		std::vector< dof_id_type > &	dofs,
		bool	asymmetric_constraint_rows = true
	)		const

Constrains the element vector.

Definition at line 1905 of file dof_map.h.

                                                          {}

constrain_nothing()

void libMesh::DofMap::constrain_nothing

(

std::vector< dof_id_type > &

dofs

)

const

Does not actually constrain anything, but modifies dofs in the same way as any of the constrain functions would do, i.e.

adds those dofs in terms of which any of the existing dofs is constrained.

constrain_p_dofs()

void libMesh::DofMap::constrain_p_dofs	(	unsigned int	var,
		const Elem *	elem,
		unsigned int	s,
		unsigned int	p
	)

Constrains degrees of freedom on side s of element elem which correspond to variable number var and to p refinement levels above p.

constraint_rows_begin()

DofConstraints::const_iterator libMesh::DofMap::constraint_rows_begin

(

)

const

Returns

An iterator pointing to the first DoF constraint row.

Definition at line 903 of file dof_map.h.

References _dof_constraints.

  { return _dof_constraints.begin(); }

constraint_rows_end()

DofConstraints::const_iterator libMesh::DofMap::constraint_rows_end

(

)

const

Returns

An iterator pointing just past the last DoF constraint row.

Definition at line 909 of file dof_map.h.

References _dof_constraints.

  { return _dof_constraints.end(); }

coupling_functors_begin()

std::set<GhostingFunctor *>::const_iterator libMesh::DofMap::coupling_functors_begin

(

)

const

Beginning of range of coupling functors.

Definition at line 318 of file dof_map.h.

References _coupling_functors.

  { return _coupling_functors.begin(); }

coupling_functors_end()

std::set<GhostingFunctor *>::const_iterator libMesh::DofMap::coupling_functors_end

(

)

const

End of range of coupling functors.

Definition at line 324 of file dof_map.h.

References _coupling_functors.

  { return _coupling_functors.end(); }

create_dof_constraints()

void libMesh::DofMap::create_dof_constraints	(	const MeshBase &	,
		Real	time = 0
	)

Rebuilds the raw degree of freedom and DofObject constraints.

A time is specified for use in building time-dependent Dirichlet constraints.

default_algebraic_ghosting()

DefaultCoupling& libMesh::DofMap::default_algebraic_ghosting

(

)

Default algebraic ghosting functor.

Definition at line 380 of file dof_map.h.

References _default_evaluating.

{ return *_default_evaluating; }

default_coupling()

DefaultCoupling& libMesh::DofMap::default_coupling

(

)

Default coupling functor.

Definition at line 330 of file dof_map.h.

References _default_coupling.

{ return *_default_coupling; }

disable_print_counter_info()

static void libMesh::ReferenceCounter::disable_print_counter_info ( )

staticinherited

distribute_dofs()

void libMesh::DofMap::distribute_dofs

(

MeshBase &

)

Distribute dofs on the current mesh.

Also builds the send list for processor proc_id, which defaults to 0 for ease of use in serial applications.

distribute_local_dofs_node_major()

void libMesh::DofMap::distribute_local_dofs_node_major ( dof_id_type &  next_free_dof, MeshBase &  mesh  )

private

Distributes the global degrees of freedom for dofs on this processor.

In this format all the degrees of freedom at a node/element are in contiguous blocks. Starts at index next_free_dof, and increments it to the post-final index. If build_send_list is true, builds the send list. If false, clears and reserves the send list.

Note

The degrees of freedom for a given variable are not in contiguous blocks, as in the case of distribute_local_dofs_var_major.

distribute_local_dofs_var_major()

void libMesh::DofMap::distribute_local_dofs_var_major ( dof_id_type &  next_free_dof, MeshBase &  mesh  )

private

Distributes the global degrees of freedom, for dofs on this processor.

In this format the local degrees of freedom are in a contiguous block for each variable in the system. Starts at index next_free_dof, and increments it to the post-final index.

dof_indices() [1/4]

void libMesh::DofMap::dof_indices	(	const Elem *const	elem,
		std::vector< dof_id_type > &	di
	)		const

Fills the vector di with the global degree of freedom indices for the element.

Referenced by FETest< order, family, elem_type >::setUp().

dof_indices() [2/4]

void libMesh::DofMap::dof_indices	(	const Elem *const	elem,
		std::vector< dof_id_type > &	di,
		const unsigned int	vn,
		int	p_level = -12345
	)		const

Fills the vector di with the global degree of freedom indices for the element.

For one variable, and potentially for a non-default element p refinement level

dof_indices() [3/4]

void libMesh::DofMap::dof_indices	(	const Node *const	node,
		std::vector< dof_id_type > &	di
	)		const

Fills the vector di with the global degree of freedom indices for the node.

dof_indices() [4/4]

void libMesh::DofMap::dof_indices	(	const Node *const	node,
		std::vector< dof_id_type > &	di,
		const unsigned int	vn
	)		const

Fills the vector di with the global degree of freedom indices for the node.

For one variable vn.

dof_owner()

processor_id_type libMesh::DofMap::dof_owner

(

const dof_id_type

dof

)

const

Returns

The processor id that owns the dof index dof

Definition at line 651 of file dof_map.h.

References _end_df.

  { std::vector<dof_id_type>::const_iterator ub =
      std::upper_bound(_end_df.begin(), _end_df.end(), dof);
    libmesh_assert (ub != _end_df.end());
    return cast_int<processor_id_type>(ub - _end_df.begin());
  }

elem_ptr()

DofObject* libMesh::DofMap::elem_ptr ( MeshBase &  mesh, dof_id_type  i  ) const

private

Returns

The Elem pointer with index i from the mesh.

enable_print_counter_info()

static void libMesh::ReferenceCounter::enable_print_counter_info ( )

staticinherited

Methods to enable/disable the reference counter output from print_info()

end_dof() [1/2]

dof_id_type libMesh::DofMap::end_dof

(

const processor_id_type

proc

)

const

Returns

The first dof index that is after all indices local to processor proc.

Analogous to the end() member function of STL containers.

Definition at line 642 of file dof_map.h.

References _end_df.

  { libmesh_assert_less (proc, _end_df.size()); return _end_df[proc]; }

end_dof() [2/2]

dof_id_type libMesh::DofMap::end_dof

(

)

const

Definition at line 645 of file dof_map.h.

References libMesh::ParallelObject::processor_id().

Referenced by local_index().

  { return this->end_dof(this->processor_id()); }

end_old_dof() [1/2]

dof_id_type libMesh::DofMap::end_old_dof

(

const processor_id_type

proc

)

const

Returns

The first old dof index that is after all indices local to processor proc.

Analogous to the end() member function of STL containers.

Definition at line 665 of file dof_map.h.

References _end_old_df.

  { libmesh_assert_less (proc, _end_old_df.size()); return _end_old_df[proc]; }

end_old_dof() [2/2]

dof_id_type libMesh::DofMap::end_old_dof

(

)

const

Definition at line 668 of file dof_map.h.

References libMesh::ParallelObject::processor_id().

  { return this->end_old_dof(this->processor_id()); }

enforce_adjoint_constraints_exactly()

void libMesh::DofMap::enforce_adjoint_constraints_exactly	(	NumericVector< Number > &	v,
		unsigned int	q
	)		const

Heterogenously constrains the numeric vector v, which represents an adjoint solution defined on the mesh for quantity fo interest q.

For homogeneous constraints, use enforce_constraints_exactly instead

Definition at line 1923 of file dof_map.h.

                                                                             {}

enforce_constraints_exactly()

void libMesh::DofMap::enforce_constraints_exactly	(	const System &	system,
		NumericVector< Number > *	v = nullptr,
		bool	homogeneous = false
	)		const

Constrains the numeric vector v, which represents a solution defined on the mesh.

This may need to be used after a linear solve, if your linear solver's solutions do not satisfy your DoF constraints to a tight enough tolerance.

If v == nullptr, the system solution vector is constrained

If homogeneous == true, heterogeneous constraints are enforced as if they were homogeneous. This might be appropriate for e.g. a vector representing a difference between two heterogeneously-constrained solutions.

Definition at line 1919 of file dof_map.h.

                                                                     {}

enforce_constraints_on_jacobian()

void libMesh::DofMap::enforce_constraints_on_jacobian	(	const NonlinearImplicitSystem &	system,
		SparseMatrix< Number > *	jac
	)		const

enforce_constraints_on_residual()

void libMesh::DofMap::enforce_constraints_on_residual	(	const NonlinearImplicitSystem &	system,
		NumericVector< Number > *	rhs,
		NumericVector< Number > const *	solution,
		bool	homogeneous = true
	)		const

extract_local_vector()

void libMesh::DofMap::extract_local_vector	(	const NumericVector< Number > &	Ug,
		const std::vector< dof_id_type > &	dof_indices,
		DenseVectorBase< Number > &	Ue
	)		const

Builds the local element vector Ue from the global vector Ug, accounting for any constrained degrees of freedom.

For an element without constrained degrees of freedom this is the trivial mapping

Note

The user must ensure that the element vector Ue is properly sized when calling this method. This is because there is no resize() method in the DenseVectorBase<> class.

find_connected_dof_objects()

void libMesh::DofMap::find_connected_dof_objects ( std::vector< const DofObject *> &  objs ) const

private

Finds all the DofObjects associated with the set in objs.

This will account for off-element couplings via hanging nodes.

find_connected_dofs()

void libMesh::DofMap::find_connected_dofs ( std::vector< dof_id_type > &  elem_dofs ) const

private

Finds all the DOFS associated with the element DOFs elem_dofs.

This will account for off-element couplings via hanging nodes.

first_dof() [1/2]

dof_id_type libMesh::DofMap::first_dof

(

const processor_id_type

proc

)

const

Returns

The first dof index that is local to partition proc.

Definition at line 600 of file dof_map.h.

References _first_df.

  { libmesh_assert_less (proc, _first_df.size()); return _first_df[proc]; }

first_dof() [2/2]

dof_id_type libMesh::DofMap::first_dof

(

)

const

Definition at line 603 of file dof_map.h.

References libMesh::ParallelObject::processor_id().

Referenced by local_index().

  { return this->first_dof(this->processor_id()); }

first_old_dof() [1/2]

dof_id_type libMesh::DofMap::first_old_dof

(

const processor_id_type

proc

)

const

Returns

The first old dof index that is local to partition proc.

Definition at line 610 of file dof_map.h.

References _first_old_df.

  { libmesh_assert_less (proc, _first_old_df.size()); return _first_old_df[proc]; }

first_old_dof() [2/2]

dof_id_type libMesh::DofMap::first_old_dof

(

)

const

Definition at line 613 of file dof_map.h.

References libMesh::ParallelObject::processor_id().

  { return this->first_old_dof(this->processor_id()); }

gather_constraints()

void libMesh::DofMap::gather_constraints	(	MeshBase &	mesh,
		std::set< dof_id_type > &	unexpanded_dofs,
		bool	look_for_constrainees
	)

Helper function for querying about constraint equations on other processors.

If any id in requested_dof_ids is constrained on another processor, its constraint will be added on this processor as well. If look_for_constrainees is true, then constraints will also be returned if the id appears as a constraining value not just if it appears as a constrained value.

This function operates recursively: if the constraint for a constrained dof is newly added locally, then any other dofs which constrain it are queried to see if they are in turn constrained, and so on.

get_adjoint_dirichlet_boundaries() [1/2]

const DirichletBoundaries* libMesh::DofMap::get_adjoint_dirichlet_boundaries

(

unsigned int

q

)

const

get_adjoint_dirichlet_boundaries() [2/2]

DirichletBoundaries* libMesh::DofMap::get_adjoint_dirichlet_boundaries

(

unsigned int

q

)

get_dirichlet_boundaries() [1/2]

const DirichletBoundaries* libMesh::DofMap::get_dirichlet_boundaries

(

)

const

Definition at line 1231 of file dof_map.h.

References _dirichlet_boundaries.

  {
    return _dirichlet_boundaries.get();
  }

get_dirichlet_boundaries() [2/2]

DirichletBoundaries* libMesh::DofMap::get_dirichlet_boundaries

(

)

Definition at line 1236 of file dof_map.h.

References _dirichlet_boundaries.

  {
    return _dirichlet_boundaries.get();
  }

get_info() [1/2]

static std::string libMesh::ReferenceCounter::get_info ( )

staticinherited

Gets a string containing the reference information.

get_info() [2/2]

std::string libMesh::DofMap::get_info

(

)

const

Gets summary info about the sparsity bandwidth and constraints.

get_local_constraints()

std::string libMesh::DofMap::get_local_constraints

(

bool

print_nonlocal = false

)

const

Gets a string reporting all DoF and Node constraints local to this processor.

If print_nonlocal is true, then nonlocal constraints which are locally known are included.

get_n_nz()

const std::vector<dof_id_type>& libMesh::DofMap::get_n_nz

(

)

const

Returns

A constant reference to the _n_nz list for this processor.

The vector contains the bandwidth of the on-processor coupling for each row of the global matrix that the current processor owns. This information can be used to preallocate space for a parallel sparse matrix.

Definition at line 460 of file dof_map.h.

References _n_nz.

  {
    libmesh_assert(_n_nz);
    return *_n_nz;
  }

get_n_oz()

const std::vector<dof_id_type>& libMesh::DofMap::get_n_oz

(

)

const

Returns

A constant reference to the _n_oz list for this processor.

The vector contains the bandwidth of the off-processor coupling for each row of the global matrix that the current processor owns. This information can be used to preallocate space for a parallel sparse matrix.

Definition at line 473 of file dof_map.h.

References _n_oz.

  {
    libmesh_assert(_n_oz);
    return *_n_oz;
  }

get_periodic_boundaries()

PeriodicBoundaries* libMesh::DofMap::get_periodic_boundaries

(

)

Definition at line 1193 of file dof_map.h.

References _periodic_boundaries.

  {
    return _periodic_boundaries.get();
  }

get_primal_constraint_values()

DofConstraintValueMap & libMesh::DofMap::get_primal_constraint_values

(

)

Returns

A reference to the set of right-hand-side values in primal constraint equations

Definition at line 1882 of file dof_map.h.

References _primal_constraint_values.

{
  return _primal_constraint_values;
}

get_send_list()

const std::vector<dof_id_type>& libMesh::DofMap::get_send_list

(

)

const

Returns

A constant reference to the _send_list for this processor.

The _send_list contains the global indices of all the variables in the global solution vector that influence the current processor. This information can be used for gathers at each solution step to retrieve solution values needed for computation.

Definition at line 451 of file dof_map.h.

References _send_list.

{ return _send_list; }

has_adjoint_dirichlet_boundaries()

bool libMesh::DofMap::has_adjoint_dirichlet_boundaries

(

unsigned int

q

)

const

has_blocked_representation()

bool libMesh::DofMap::has_blocked_representation

(

)

const

Returns

true if the variables are capable of being stored in a blocked form. Presently, this means that there can only be one variable group, and that the group has more than one variable.

Definition at line 550 of file dof_map.h.

References n_variable_groups(), and n_variables().

Referenced by block_size().

  {
#ifdef LIBMESH_ENABLE_BLOCKED_STORAGE
    return ((this->n_variable_groups() == 1) && (this->n_variables() > 1));
#else
    return false;
#endif
  }

has_heterogenous_adjoint_constraint()

Number libMesh::DofMap::has_heterogenous_adjoint_constraint	(	const unsigned int	qoi_num,
		const dof_id_type	dof
	)		const

Returns

The heterogeneous constraint value if the degree of freedom dof has a heterogenous constraint for adjoint solution qoi_num, zero otherwise.

Definition at line 1861 of file dof_map.h.

References _adjoint_constraint_values.

{
  AdjointDofConstraintValues::const_iterator it =
    _adjoint_constraint_values.find(qoi_num);
  if (it != _adjoint_constraint_values.end())
    {
      DofConstraintValueMap::const_iterator rhsit =
        it->second.find(dof);
      if (rhsit == it->second.end())
        return 0;
      else
        return rhsit->second;
    }

  return 0;
}

has_heterogenous_adjoint_constraints()

bool libMesh::DofMap::has_heterogenous_adjoint_constraints

(

const unsigned int

qoi_num

)

const

Returns

true if the system has any heterogenous constraints for adjoint solution qoi_num, false otherwise.

Definition at line 1847 of file dof_map.h.

References _adjoint_constraint_values.

{
  AdjointDofConstraintValues::const_iterator it =
    _adjoint_constraint_values.find(qoi_num);
  if (it == _adjoint_constraint_values.end())
    return false;
  if (it->second.empty())
    return false;

  return true;
}

heterogenously_constrain_element_matrix_and_vector()

void libMesh::DofMap::heterogenously_constrain_element_matrix_and_vector	(	DenseMatrix< Number > &	matrix,
		DenseVector< Number > &	rhs,
		std::vector< dof_id_type > &	elem_dofs,
		bool	asymmetric_constraint_rows = true,
		int	qoi_index = -1
	)		const

Constrains the element matrix and vector.

This method requires the element matrix to be square, in which case the elem_dofs correspond to the global DOF indices of both the rows and columns of the element matrix. For this case the rows and columns of the matrix necessarily correspond to variables of the same approximation order.

The heterogenous version of this method creates linear systems in which heterogenously constrained degrees of freedom will solve to their correct offset values, as would be appropriate for finding a solution to a linear problem in a single algebraic solve. The non-heterogenous version of this method creates linear systems in which even heterogenously constrained degrees of freedom are solved without offset values taken into account, as would be appropriate for finding linearized updates to a solution in which heterogenous constraints are already satisfied.

By default, the constraints for the primal solution of this system are used. If a non-negative qoi_index is passed in, then the constraints for the corresponding adjoint solution are used instead.

heterogenously_constrain_element_vector()

void libMesh::DofMap::heterogenously_constrain_element_vector	(	const DenseMatrix< Number > &	matrix,
		DenseVector< Number > &	rhs,
		std::vector< dof_id_type > &	elem_dofs,
		bool	asymmetric_constraint_rows = true,
		int	qoi_index = -1
	)		const

Constrains the element vector.

This method requires the element matrix to be square and not-yet-constrained, in which case the elem_dofs correspond to the global DOF indices of both the rows and columns of the element matrix.

The heterogenous version of this method creates linear systems in which heterogenously constrained degrees of freedom will solve to their correct offset values, as would be appropriate for finding a solution to a linear problem in a single algebraic solve. The non-heterogenous version of this method creates linear systems in which even heterogenously constrained degrees of freedom are solved without offset values taken into account, as would be appropriate for finding linearized updates to a solution in which heterogenous constraints are already satisfied.

By default, the constraints for the primal solution of this system are used. If a non-negative qoi_index is passed in, then the constraints for the corresponding adjoint solution are used instead.

increment_constructor_count()

void libMesh::ReferenceCounter::increment_constructor_count ( const std::string &  name )

protectedinherited

Increments the construction counter.

Should be called in the constructor of any derived class that will be reference counted.

Definition at line 181 of file reference_counter.h.

References libMesh::ReferenceCounter::_counts, libMesh::Quality::name(), and libMesh::Threads::spin_mtx.

Referenced by libMesh::ReferenceCountedObject< RBParametrized >::ReferenceCountedObject().

{
  Threads::spin_mutex::scoped_lock lock(Threads::spin_mtx);
  std::pair<unsigned int, unsigned int> & p = _counts[name];

  p.first++;
}

increment_destructor_count()

void libMesh::ReferenceCounter::increment_destructor_count ( const std::string &  name )

protectedinherited

Increments the destruction counter.

Should be called in the destructor of any derived class that will be reference counted.

Definition at line 194 of file reference_counter.h.

References libMesh::ReferenceCounter::_counts, libMesh::Quality::name(), and libMesh::Threads::spin_mtx.

Referenced by libMesh::ReferenceCountedObject< RBParametrized >::~ReferenceCountedObject().

{
  Threads::spin_mutex::scoped_lock lock(Threads::spin_mtx);
  std::pair<unsigned int, unsigned int> & p = _counts[name];

  p.second++;
}

invalidate_dofs()

void libMesh::DofMap::invalidate_dofs ( MeshBase &  mesh ) const

private

Invalidates all active DofObject dofs for this system.

is_attached()

bool libMesh::DofMap::is_attached

(

SparseMatrix< Number > &

matrix

)

Matrices should not be attached more than once.

We can test for an already-attached matrix if necessary using is_attached

is_constrained_dof()

bool libMesh::DofMap::is_constrained_dof

(

const dof_id_type

dof

)

const

Returns

true if the degree of freedom dof is constrained, false otherwise.

Definition at line 1837 of file dof_map.h.

References _dof_constraints.

{
  if (_dof_constraints.count(dof))
    return true;

  return false;
}

is_constrained_node()

bool libMesh::DofMap::is_constrained_node

(

const Node *

node

)

const

Returns

true if the Node is constrained, false otherwise.

Definition at line 1820 of file dof_map.h.

References _node_constraints.

{
#ifdef LIBMESH_ENABLE_NODE_CONSTRAINTS
  if (_node_constraints.count(node))
    return true;
#endif

  return false;
}

is_evaluable()

template<typename DofObjectSubclass >

bool libMesh::DofMap::is_evaluable	(	const DofObjectSubclass &	obj,
		unsigned int	var_num = libMesh::invalid_uint
	)		const

Returns

true iff our solutions can be locally evaluated on obj (which should be an Elem or a Node) for variable number var_num (for all variables, if var_num is invalid_uint)

is_periodic_boundary()

bool libMesh::DofMap::is_periodic_boundary

(

const boundary_id_type

boundaryid

)

const

Returns

true if the boundary given by boundaryid is periodic, false otherwise

last_dof() [1/2]

dof_id_type libMesh::DofMap::last_dof

(

const processor_id_type

proc

)

const

Returns

The last dof index that is local to processor proc.

Deprecated:

This function returns nonsense in the rare case where proc has no local dof indices. Use end_dof() instead.

Definition at line 625 of file dof_map.h.

References _end_df.

  {
    libmesh_deprecated();
    libmesh_assert_less (proc, _end_df.size());
    return cast_int<dof_id_type>(_end_df[proc] - 1);
  }

last_dof() [2/2]

dof_id_type libMesh::DofMap::last_dof

(

)

const

Definition at line 632 of file dof_map.h.

References libMesh::ParallelObject::processor_id().

  { return this->last_dof(this->processor_id()); }

local_index()

bool libMesh::DofMap::local_index

(

dof_id_type

dof_index

)

const

Returns

true if degree of freedom index dof_index is a local index.

Definition at line 739 of file dof_map.h.

References end_dof(), and first_dof().

  { return (dof_index >= this->first_dof()) && (dof_index < this->end_dof()); }

local_variable_indices()

void libMesh::DofMap::local_variable_indices	(	std::vector< dof_id_type > &	idx,
		const MeshBase &	mesh,
		unsigned int	var_num
	)		const

Fills an array of those dof indices which belong to the given variable number and live on the current processor.

max_constraint_error()

std::pair<Real, Real> libMesh::DofMap::max_constraint_error	(	const System &	system,
		NumericVector< Number > *	v = nullptr
	)		const

Tests the constrained degrees of freedom on the numeric vector v, which represents a solution defined on the mesh, returning a pair whose first entry is the maximum absolute error on a constrained DoF and whose second entry is the maximum relative error.

Useful for debugging purposes.

If v == nullptr, the system solution vector is tested.

merge_ghost_functor_outputs()

static void libMesh::DofMap::merge_ghost_functor_outputs ( GhostingFunctor::map_type &  elements_to_ghost, std::set< CouplingMatrix *> &  temporary_coupling_matrices, const std::set< GhostingFunctor *>::iterator &  gf_begin, const std::set< GhostingFunctor *>::iterator &  gf_end, const MeshBase::const_element_iterator &  elems_begin, const MeshBase::const_element_iterator &  elems_end, processor_id_type  p  )

staticprivate

n_constrained_dofs()

dof_id_type libMesh::DofMap::n_constrained_dofs

(

)

const

Returns

The total number of constrained degrees of freedom in the problem.

n_constrained_nodes()

dof_id_type libMesh::DofMap::n_constrained_nodes

(

)

const

Returns

The total number of constrained Nodes in the mesh.

Definition at line 811 of file dof_map.h.

References _node_constraints.

  { return cast_int<dof_id_type>(_node_constraints.size()); }

n_dofs()

dof_id_type libMesh::DofMap::n_dofs

(

)

const

Returns

The total number of degrees of freedom in the problem.

Definition at line 575 of file dof_map.h.

References _n_dfs.

{ return _n_dfs; }

n_dofs_on_processor()

dof_id_type libMesh::DofMap::n_dofs_on_processor

(

const processor_id_type

proc

)

const

Returns

The number of degrees of freedom on partition proc.

Definition at line 591 of file dof_map.h.

References _end_df, and _first_df.

Referenced by n_local_dofs().

  {
    libmesh_assert_less (proc, _first_df.size());
    return cast_int<dof_id_type>(_end_df[proc] - _first_df[proc]);
  }

n_local_constrained_dofs()

dof_id_type libMesh::DofMap::n_local_constrained_dofs

(

)

const

Returns

The number of constrained degrees of freedom on this processor.

n_local_dofs()

dof_id_type libMesh::DofMap::n_local_dofs

(

)

const

Returns

The number of degrees of freedom on this processor.

Definition at line 585 of file dof_map.h.

References n_dofs_on_processor(), and libMesh::ParallelObject::processor_id().

  { return this->n_dofs_on_processor (this->processor_id()); }

n_objects()

static unsigned int libMesh::ReferenceCounter::n_objects ( )

staticinherited

Prints the number of outstanding (created, but not yet destroyed) objects.

Definition at line 83 of file reference_counter.h.

References libMesh::ReferenceCounter::_n_objects.

  { return _n_objects; }

n_old_dofs()

dof_id_type libMesh::DofMap::n_old_dofs

(

)

const

Returns

The total number of degrees of freedom on old_dof_objects

Definition at line 1279 of file dof_map.h.

References _n_old_dfs.

{ return _n_old_dfs; }

n_processors()

processor_id_type libMesh::ParallelObject::n_processors ( ) const

inherited

Returns

The number of processors in the group.

Definition at line 95 of file parallel_object.h.

References libMesh::ParallelObject::_communicator, and libMesh::Parallel::Communicator::size().

Referenced by libMesh::MeshBase::partition().

  { return cast_int<processor_id_type>(_communicator.size()); }

n_SCALAR_dofs()

dof_id_type libMesh::DofMap::n_SCALAR_dofs

(

)

const

Returns

The number of SCALAR dofs.

Definition at line 580 of file dof_map.h.

References _n_SCALAR_dofs.

{ return _n_SCALAR_dofs; }

n_variable_groups()

unsigned int libMesh::DofMap::n_variable_groups

(

)

const

Returns

The number of variables in the global solution vector. Defaults to 1, should be 1 for a scalar equation, 3 for 2D incompressible Navier Stokes (u,v,p), etc...

Definition at line 534 of file dof_map.h.

References _variable_groups.

Referenced by has_blocked_representation().

  { return cast_int<unsigned int>(_variable_groups.size()); }

n_variables()

unsigned int libMesh::DofMap::n_variables

(

)

const

Returns

The number of variables in the global solution vector. Defaults to 1, should be 1 for a scalar equation, 3 for 2D incompressible Navier Stokes (u,v,p), etc...

Definition at line 542 of file dof_map.h.

References _variables.

Referenced by block_size(), and has_blocked_representation().

  { return cast_int<unsigned int>(_variables.size()); }

node_constraint_rows_begin()

NodeConstraints::const_iterator libMesh::DofMap::node_constraint_rows_begin

(

)

const

Returns

An iterator pointing to the first Node constraint row.

Definition at line 928 of file dof_map.h.

References _node_constraints.

  { return _node_constraints.begin(); }

node_constraint_rows_end()

NodeConstraints::const_iterator libMesh::DofMap::node_constraint_rows_end

(

)

const

Returns

An iterator pointing just past the last Node constraint row.

Definition at line 934 of file dof_map.h.

References _node_constraints.

  { return _node_constraints.end(); }

node_ptr()

DofObject* libMesh::DofMap::node_ptr ( MeshBase &  mesh, dof_id_type  i  ) const

private

Returns

The Node pointer with index i from the mesh.

old_dof_indices()

void libMesh::DofMap::old_dof_indices	(	const Elem *const	elem,
		std::vector< dof_id_type > &	di,
		const unsigned int	vn = libMesh::invalid_uint
	)		const

After a mesh is refined and repartitioned it is possible that the _send_list will need to be augmented.

This is the case when an element is refined and its children end up on different processors than the parent. These children will need values from the parent when projecting the solution onto the refined mesh, hence the parent's DOF indices need to be included in the _send_list. Fills the vector di with the global degree of freedom indices for the element using the DofMap::old_dof_object. If no variable number is specified then all variables are returned.

prepare_send_list()

void libMesh::DofMap::prepare_send_list

(

)

Takes the _send_list vector (which may have duplicate entries) and sorts it.

The duplicate entries are then removed, resulting in a sorted _send_list with unique entries. Also calls any user-provided methods for adding to the send list.

print_dof_constraints()

void libMesh::DofMap::print_dof_constraints	(	std::ostream &	os = libMesh::out,
		bool	print_nonlocal = false
	)		const

Prints (from processor 0) all DoF and Node constraints.

If print_nonlocal is true, then each constraint is printed once for each processor that knows about it, which may be useful for DistributedMesh debugging.

print_info() [1/2]

static void libMesh::ReferenceCounter::print_info ( std::ostream &  out = libMesh::out )

staticinherited

Prints the reference information, by default to libMesh::out.

print_info() [2/2]

void libMesh::DofMap::print_info

(

std::ostream &

os = libMesh::out

)

const

Prints summary info about the sparsity bandwidth and constraints.

process_constraints()

void libMesh::DofMap::process_constraints

(

MeshBase &

)

Postprocesses any constrained degrees of freedom to be constrained only in terms of unconstrained dofs, then adds unconstrained dofs to the send_list and prepares that for use.

This should be run after both system (create_dof_constraints) and user constraints have all been added.

processor_id()

processor_id_type libMesh::ParallelObject::processor_id ( ) const

inherited

Returns

The rank of this processor in the group.

Definition at line 101 of file parallel_object.h.

References libMesh::ParallelObject::_communicator, and libMesh::Parallel::Communicator::rank().

Referenced by end_dof(), end_old_dof(), first_dof(), first_old_dof(), last_dof(), libMesh::MeshBase::n_active_local_elem(), n_local_dofs(), libMesh::MeshBase::n_local_elem(), libMesh::MeshBase::n_local_nodes(), and libMesh::MeshTools::weight().

  { return cast_int<processor_id_type>(_communicator.rank()); }

reinit()

void libMesh::DofMap::reinit

(

MeshBase &

mesh

)

Reinitialize the underlying data structures conformal to the current mesh.

remove_adjoint_dirichlet_boundary()

void libMesh::DofMap::remove_adjoint_dirichlet_boundary	(	const DirichletBoundary &	dirichlet_boundary,
		unsigned int	q
	)

Removes from the system the specified Dirichlet boundary for the adjoint equation defined by Quantity of interest index q.

remove_algebraic_ghosting_functor()

void libMesh::DofMap::remove_algebraic_ghosting_functor

(

GhostingFunctor &

evaluable_functor

)

Removes a functor which was previously added to the set of algebraic ghosting functors, from both this DofMap and from the underlying mesh.

remove_coupling_functor()

void libMesh::DofMap::remove_coupling_functor

(

GhostingFunctor &

coupling_functor

)

Removes a functor which was previously added to the set of coupling functors, from both this DofMap and from the underlying mesh.

remove_default_ghosting()

void libMesh::DofMap::remove_default_ghosting

(

)

Remove any default ghosting functor(s).

User-added ghosting functors will be unaffected.

Unless user-added equivalent ghosting functors exist, removing the default coupling functor is only safe for explicit solves, and removing the default algebraic ghosting functor is only safe for codes where no evaluations on neighbor cells (e.g. no jump error estimators) are done.

Defaults can be restored manually via add_default_ghosting(), or automatically if clear() returns the DofMap to a default state.

remove_dirichlet_boundary()

void libMesh::DofMap::remove_dirichlet_boundary

(

const DirichletBoundary &

dirichlet_boundary

)

Removes the specified Dirichlet boundary from the system.

SCALAR_dof_indices()

void libMesh::DofMap::SCALAR_dof_indices	(	std::vector< dof_id_type > &	di,
		const unsigned int	vn,
		const bool	old_dofs = false
	)		const

Fills the vector di with the global degree of freedom indices corresponding to the SCALAR variable vn.

If old_dofs=true, the old SCALAR dof indices are returned.

Note

We do not need to pass in an element since SCALARs are global variables.

scatter_constraints()

void libMesh::DofMap::scatter_constraints

(

MeshBase &

)

Sends constraint equations to constraining processors.

semilocal_index()

bool libMesh::DofMap::semilocal_index

(

dof_id_type

dof_index

)

const

Returns

true if degree of freedom index dof_index is either a local index or in the send_list.

Note

This is an O(logN) operation for a send_list of size N; we don't cache enough information for O(1) right now.

set_error_on_cyclic_constraint()

void libMesh::DofMap::set_error_on_cyclic_constraint

(

bool

error_on_cyclic_constraint

)

Specify whether or not we perform an extra (opt-mode enabled) check for cyclic constraints.

If a cyclic constraint is present then the system constraints are not valid, so if error_on_cyclic_constraint is true we will throw an error in this case.

set_implicit_neighbor_dofs()

void libMesh::DofMap::set_implicit_neighbor_dofs

(

bool

implicit_neighbor_dofs

)

Allow the implicit_neighbor_dofs flag to be set programmatically.

This overrides the –implicit_neighbor_dofs commandline option. We can use this to set the implicit neighbor dofs option differently for different systems, whereas the commandline option is the same for all systems.

set_nonlocal_dof_objects()

template<typename iterator_type >

void libMesh::DofMap::set_nonlocal_dof_objects ( iterator_type  objects_begin, iterator_type  objects_end, MeshBase &  mesh, dofobject_accessor  objects  )

private

Helper function for distributing dofs in parallel.

stash_dof_constraints()

void libMesh::DofMap::stash_dof_constraints

(

)

Definition at line 912 of file dof_map.h.

References _dof_constraints, and _stashed_dof_constraints.

  {
    libmesh_assert(_stashed_dof_constraints.empty());
    _dof_constraints.swap(_stashed_dof_constraints);
  }

sys_number()

unsigned int libMesh::DofMap::sys_number

(

)

const

Returns

The number of the system we are responsible for.

Definition at line 1752 of file dof_map.h.

References _sys_number.

{
  return _sys_number;
}

unstash_dof_constraints()

void libMesh::DofMap::unstash_dof_constraints

(

)

Definition at line 918 of file dof_map.h.

References _dof_constraints, and _stashed_dof_constraints.

  {
    libmesh_assert(_dof_constraints.empty());
    _dof_constraints.swap(_stashed_dof_constraints);
  }

use_coupled_neighbor_dofs()

bool libMesh::DofMap::use_coupled_neighbor_dofs

(

const MeshBase &

mesh

)

const

Tells other library functions whether or not this problem includes coupling between dofs in neighboring cells, as can currently be specified on the command line or inferred from the use of all discontinuous variables.

variable()

const Variable & libMesh::DofMap::variable

(

const unsigned int

c

)

const

Returns

The variable description object for variable c.

Definition at line 1770 of file dof_map.h.

References _variables.

Referenced by libMesh::GenericProjector< FFunctor, GFunctor, FValue, ProjectionAction >::operator()().

{
  libmesh_assert_less (c, _variables.size());

  return _variables[c];
}

variable_group()

const VariableGroup & libMesh::DofMap::variable_group

(

const unsigned int

c

)

const

Returns

The VariableGroup description object for group g.

Definition at line 1760 of file dof_map.h.

References _variable_groups.

{
  libmesh_assert_less (g, _variable_groups.size());

  return _variable_groups[g];
}

variable_group_order()

Order libMesh::DofMap::variable_group_order

(

const unsigned int

vg

)

const

Returns

The approximation order for VariableGroup vg.

Definition at line 1790 of file dof_map.h.

References _variable_groups.

{
  libmesh_assert_less (vg, _variable_groups.size());

  return _variable_groups[vg].type().order;
}

variable_group_type()

const FEType & libMesh::DofMap::variable_group_type

(

const unsigned int

vg

)

const

Returns

The finite element type for VariableGroup vg.

Definition at line 1810 of file dof_map.h.

References _variable_groups.

{
  libmesh_assert_less (vg, _variable_groups.size());

  return _variable_groups[vg].type();
}

variable_order()

Order libMesh::DofMap::variable_order

(

const unsigned int

c

)

const

Returns

The approximation order for variable c.

Definition at line 1780 of file dof_map.h.

References _variables.

{
  libmesh_assert_less (c, _variables.size());

  return _variables[c].type().order;
}

variable_type()

const FEType & libMesh::DofMap::variable_type

(

const unsigned int

c

)

const

Returns

The finite element type for variable c.

Definition at line 1800 of file dof_map.h.

References _variables.

{
  libmesh_assert_less (c, _variables.size());

  return _variables[c].type();
}

Friends And Related Function Documentation

SparsityPattern::Build

friend class SparsityPattern::Build

friend

Definition at line 1738 of file dof_map.h.

Member Data Documentation

_adjoint_constraint_values

AdjointDofConstraintValues libMesh::DofMap::_adjoint_constraint_values

private

Definition at line 1699 of file dof_map.h.

Referenced by has_heterogenous_adjoint_constraint(), and has_heterogenous_adjoint_constraints().

_adjoint_dirichlet_boundaries

std::vector<DirichletBoundaries *> libMesh::DofMap::_adjoint_dirichlet_boundaries

private

Data structure containing Dirichlet functions.

The ith entry is the constraint matrix row for boundaryid i.

Definition at line 1735 of file dof_map.h.

_algebraic_ghosting_functors

std::set<GhostingFunctor *> libMesh::DofMap::_algebraic_ghosting_functors

private

The list of all GhostingFunctor objects to be used when distributing ghosted vectors.

The library should automatically copy these functors to the MeshBase, too, so any algebraically ghosted dofs will live on geometrically ghosted elements.

Definition at line 1613 of file dof_map.h.

Referenced by algebraic_ghosting_functors_begin(), and algebraic_ghosting_functors_end().

_augment_send_list

AugmentSendList* libMesh::DofMap::_augment_send_list

private

Function object to call to add extra entries to the send list.

Definition at line 1577 of file dof_map.h.

Referenced by attach_extra_send_list_object().

_augment_sparsity_pattern

AugmentSparsityPattern* libMesh::DofMap::_augment_sparsity_pattern

private

Function object to call to add extra entries to the sparsity pattern.

Definition at line 1560 of file dof_map.h.

Referenced by attach_extra_sparsity_object().

_communicator

const Parallel::Communicator& libMesh::ParallelObject::_communicator

protectedinherited

Definition at line 107 of file parallel_object.h.

Referenced by libMesh::ParallelObject::comm(), libMesh::ParallelObject::n_processors(), libMesh::ParallelObject::operator=(), and libMesh::ParallelObject::processor_id().

_counts

Counts libMesh::ReferenceCounter::_counts

staticprotectedinherited

Actually holds the data.

Definition at line 122 of file reference_counter.h.

Referenced by libMesh::ReferenceCounter::increment_constructor_count(), and libMesh::ReferenceCounter::increment_destructor_count().

_coupling_functors

std::set<GhostingFunctor *> libMesh::DofMap::_coupling_functors

private

The list of all GhostingFunctor objects to be used when coupling degrees of freedom in matrix sparsity patterns.

These objects will also be used as algebraic ghosting functors, but not vice-versa.

The library should automatically copy these functors to the MeshBase, too, so any dofs coupled to local dofs will live on geometrically ghosted elements.

Definition at line 1626 of file dof_map.h.

Referenced by coupling_functors_begin(), and coupling_functors_end().

_default_coupling

std::unique_ptr<DefaultCoupling> libMesh::DofMap::_default_coupling

private

The default coupling GhostingFunctor, used to implement standard libMesh sparsity pattern construction.

We use a std::unique_ptr here to reduce header dependencies.

Definition at line 1595 of file dof_map.h.

Referenced by default_coupling().

_default_evaluating

std::unique_ptr<DefaultCoupling> libMesh::DofMap::_default_evaluating

private

The default algebraic GhostingFunctor, used to implement standard libMesh send_list construction.

We use a std::unique_ptr here to reduce header dependencies.

Definition at line 1603 of file dof_map.h.

Referenced by default_algebraic_ghosting().

_dirichlet_boundaries

std::unique_ptr<DirichletBoundaries> libMesh::DofMap::_dirichlet_boundaries

private

Data structure containing Dirichlet functions.

The ith entry is the constraint matrix row for boundaryid i.

Definition at line 1729 of file dof_map.h.

Referenced by get_dirichlet_boundaries().

_dof_constraints

DofConstraints libMesh::DofMap::_dof_constraints

private

Data structure containing DOF constraints.

The ith entry is the constraint matrix row for DOF i.

Definition at line 1695 of file dof_map.h.

Referenced by constraint_rows_begin(), constraint_rows_end(), is_constrained_dof(), stash_dof_constraints(), and unstash_dof_constraints().

_dof_coupling

CouplingMatrix* libMesh::DofMap::_dof_coupling

Degree of freedom coupling.

If left empty each DOF couples to all others. Can be used to reduce memory requirements for sparse matrices. DOF 0 might only couple to itself, in which case dof_coupling(0,0) should be 1 and dof_coupling(0,j) = 0 for j not equal to 0.

This variable is named as though it were class private, but it is in the public interface. Also there are no public methods for accessing it... This typically means you should only use it if you know what you are doing.

Definition at line 1327 of file dof_map.h.

_enable_print_counter

bool libMesh::ReferenceCounter::_enable_print_counter

staticprotectedinherited

Flag to control whether reference count information is printed when print_info is called.

Definition at line 141 of file reference_counter.h.

_end_df

std::vector<dof_id_type> libMesh::DofMap::_end_df

private

Last DOF index (plus 1) on processor p.

Definition at line 1543 of file dof_map.h.

Referenced by dof_owner(), end_dof(), last_dof(), and n_dofs_on_processor().

_end_old_df

std::vector<dof_id_type> libMesh::DofMap::_end_old_df

private

Last old DOF index (plus 1) on processor p.

Definition at line 1680 of file dof_map.h.

Referenced by end_old_dof().

_error_on_cyclic_constraint

bool libMesh::DofMap::_error_on_cyclic_constraint

private

This flag indicates whether or not we do an opt-mode check for the presence of cyclic constraints.

Definition at line 1501 of file dof_map.h.

_extra_send_list_context

void* libMesh::DofMap::_extra_send_list_context

private

A pointer associated with the extra send list that can optionally be passed in.

Definition at line 1587 of file dof_map.h.

Referenced by attach_extra_send_list_function().

_extra_send_list_function

void(* libMesh::DofMap::_extra_send_list_function) (std::vector< dof_id_type > &, void *)

private

A function pointer to a function to call to add extra entries to the send list.

Definition at line 1582 of file dof_map.h.

Referenced by attach_extra_send_list_function().

_extra_sparsity_context

void* libMesh::DofMap::_extra_sparsity_context

private

A pointer associated with the extra sparsity that can optionally be passed in.

Definition at line 1572 of file dof_map.h.

Referenced by attach_extra_sparsity_function().

_extra_sparsity_function

void(* libMesh::DofMap::_extra_sparsity_function) (SparsityPattern::Graph &, std::vector< dof_id_type > &n_nz, std::vector< dof_id_type > &n_oz, void *)

private

A function pointer to a function to call to add extra entries to the sparsity pattern.

Definition at line 1565 of file dof_map.h.

Referenced by attach_extra_sparsity_function().

_first_df

std::vector<dof_id_type> libMesh::DofMap::_first_df

private

First DOF index on processor p.

Definition at line 1538 of file dof_map.h.

Referenced by first_dof(), and n_dofs_on_processor().

_first_old_df

std::vector<dof_id_type> libMesh::DofMap::_first_old_df

private

First old DOF index on processor p.

Definition at line 1675 of file dof_map.h.

Referenced by first_old_dof().

_first_old_scalar_df

std::vector<dof_id_type> libMesh::DofMap::_first_old_scalar_df

private

First old DOF index for SCALAR variable v, or garbage for non-SCALAR variable v.

Definition at line 1686 of file dof_map.h.

_first_scalar_df

std::vector<dof_id_type> libMesh::DofMap::_first_scalar_df

private

First DOF index for SCALAR variable v, or garbage for non-SCALAR variable v.

Definition at line 1549 of file dof_map.h.

_implicit_neighbor_dofs

bool libMesh::DofMap::_implicit_neighbor_dofs

private

Definition at line 1745 of file dof_map.h.

_implicit_neighbor_dofs_initialized

bool libMesh::DofMap::_implicit_neighbor_dofs_initialized

private

Bools to indicate if we override the –implicit_neighbor_dofs commandline options.

Definition at line 1744 of file dof_map.h.

_matrices

std::vector<SparseMatrix<Number> * > libMesh::DofMap::_matrices

private

Additional matrices handled by this object.

These pointers do not handle the memory, instead, System, who told DofMap about them, owns them.

Definition at line 1533 of file dof_map.h.

_mesh

MeshBase& libMesh::DofMap::_mesh

private

The mesh that system uses.

Definition at line 1526 of file dof_map.h.

_mutex

Threads::spin_mutex libMesh::ReferenceCounter::_mutex

staticprotectedinherited

Mutual exclusion object to enable thread-safe reference counting.

Definition at line 135 of file reference_counter.h.

_n_dfs

dof_id_type libMesh::DofMap::_n_dfs

private

Total number of degrees of freedom.

Definition at line 1657 of file dof_map.h.

Referenced by n_dofs().

_n_nz

std::vector<dof_id_type>* libMesh::DofMap::_n_nz

private

The number of on-processor nonzeros in my portion of the global matrix.

If need_full_sparsity_pattern is true, this will just be a pointer into the corresponding sparsity pattern vector. Otherwise we have to new/delete it ourselves.

Definition at line 1646 of file dof_map.h.

Referenced by get_n_nz().

_n_objects

Threads::atomic<unsigned int> libMesh::ReferenceCounter::_n_objects

staticprotectedinherited

The number of objects.

Print the reference count information when the number returns to 0.

Definition at line 130 of file reference_counter.h.

Referenced by libMesh::ReferenceCounter::n_objects(), libMesh::ReferenceCounter::ReferenceCounter(), and libMesh::ReferenceCounter::~ReferenceCounter().

_n_old_dfs

dof_id_type libMesh::DofMap::_n_old_dfs

private

Total number of degrees of freedom on old dof objects.

Definition at line 1670 of file dof_map.h.

Referenced by n_old_dofs().

_n_oz

std::vector<dof_id_type>* libMesh::DofMap::_n_oz

private

The number of off-processor nonzeros in my portion of the global matrix; allocated similar to _n_nz.

Definition at line 1652 of file dof_map.h.

Referenced by get_n_oz().

_n_SCALAR_dofs

dof_id_type libMesh::DofMap::_n_SCALAR_dofs

private

The total number of SCALAR dofs associated to all SCALAR variables.

Definition at line 1663 of file dof_map.h.

Referenced by n_SCALAR_dofs().

_node_constraints

NodeConstraints libMesh::DofMap::_node_constraints

private

Data structure containing DofObject constraints.

Definition at line 1706 of file dof_map.h.

Referenced by is_constrained_node(), n_constrained_nodes(), node_constraint_rows_begin(), and node_constraint_rows_end().

_periodic_boundaries

std::unique_ptr<PeriodicBoundaries> libMesh::DofMap::_periodic_boundaries

private

Data structure containing periodic boundaries.

The ith entry is the constraint matrix row for boundaryid i.

Definition at line 1715 of file dof_map.h.

Referenced by get_periodic_boundaries().

_primal_constraint_values

DofConstraintValueMap libMesh::DofMap::_primal_constraint_values

private

Definition at line 1697 of file dof_map.h.

Referenced by get_primal_constraint_values().

_send_list

std::vector<dof_id_type> libMesh::DofMap::_send_list

private

A list containing all the global DOF indices that affect the solution on my processor.

Definition at line 1555 of file dof_map.h.

Referenced by get_send_list().

_sp

std::unique_ptr<SparsityPattern::Build> libMesh::DofMap::_sp

private

The sparsity pattern of the global matrix, kept around if it might be needed by future additions of the same type of matrix.

Definition at line 1638 of file dof_map.h.

_stashed_dof_constraints

DofConstraints libMesh::DofMap::_stashed_dof_constraints

private

Definition at line 1695 of file dof_map.h.

Referenced by stash_dof_constraints(), and unstash_dof_constraints().

_sys_number

const unsigned int libMesh::DofMap::_sys_number

private

The number of the system we manage DOFs for.

Definition at line 1521 of file dof_map.h.

Referenced by sys_number().

_variable_group_numbers

std::vector<unsigned int> libMesh::DofMap::_variable_group_numbers

private

The variable group number for each variable.

Definition at line 1516 of file dof_map.h.

_variable_groups

std::vector<VariableGroup> libMesh::DofMap::_variable_groups

private

The finite element type for each variable group.

Definition at line 1511 of file dof_map.h.

Referenced by n_variable_groups(), variable_group(), variable_group_order(), and variable_group_type().

_variables

std::vector<Variable> libMesh::DofMap::_variables

private

The finite element type for each variable.

Definition at line 1506 of file dof_map.h.

Referenced by n_variables(), variable(), variable_order(), and variable_type().

need_full_sparsity_pattern

bool libMesh::DofMap::need_full_sparsity_pattern

private

Default false; set to true if any attached matrix requires a full sparsity pattern.

Definition at line 1632 of file dof_map.h.

---

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

• include/base/dof_map.h