A general mesh class. More...
#include <mesh.h>
Inheritance diagram for oomph::Mesh:
Public Types | |
| typedef void(FiniteElement::* | SteadyExactSolutionFctPt) (const Vector< double > &x, Vector< double > &soln) |
| Typedef for function pointer to function that computes steady exact solution. More... | |
| typedef void(FiniteElement::* | UnsteadyExactSolutionFctPt) (const double &time, const Vector< double > &x, Vector< double > &soln) |
| Typedef for function pointer to function that computes unsteady exact solution. More... | |
Public Member Functions | |
| void | resize_halo_nodes () |
| Helper function that resizes halo nodes to the same size as their non-halo counterparts if required. (A discrepancy can arise if a FaceElement that introduces additional unknowns are attached to a bulk element that shares a node with a haloed element. In that case the joint node between haloed and non-haloed element is resized on that processor but not on the one that holds the halo counterpart (because no FaceElement is attached to the halo element) More... | |
| Mesh () | |
| Default constructor. More... | |
| Mesh (const Vector< Mesh * > &sub_mesh_pt) | |
| Constructor builds combined mesh from the meshes specified. Note: This simply merges the meshes' elements and nodes (ignoring duplicates; no boundary information etc. is created). More... | |
| void | merge_meshes (const Vector< Mesh * > &sub_mesh_pt) |
| Merge meshes. Note: This simply merges the meshes' elements and nodes (ignoring duplicates; no boundary information etc. is created). More... | |
| virtual void | setup_boundary_element_info () |
| Interface for function that is used to setup the boundary information (Empty virtual function – implement this for specific Mesh classes) More... | |
| virtual void | setup_boundary_element_info (std::ostream &outfile) |
| Setup lookup schemes which establish whic elements are located next to mesh's boundaries. Doc in outfile (if it's open). (Empty virtual function – implement this for specific Mesh classes) More... | |
| virtual void | reset_boundary_element_info (Vector< unsigned > &ntmp_boundary_elements, Vector< Vector< unsigned >> &ntmp_boundary_elements_in_region, Vector< FiniteElement * > &deleted_elements) |
| Virtual function to perform the reset boundary elements info rutines. More... | |
| template<class BULK_ELEMENT > | |
| void | doc_boundary_coordinates (const unsigned &b, std::ofstream &the_file) |
| Output boundary coordinates on boundary b – template argument specifies the bulk element type (needed to create FaceElement of appropriate type on mesh boundary). More... | |
| virtual void | scale_mesh (const double &factor) |
| Scale all nodal coordinates by given factor. Virtual so it can be overloaded in SolidMesh class where it also re-assigns the Lagrangian coordinates. More... | |
| Mesh (const Mesh &dummy)=delete | |
| Broken copy constructor. More... | |
| void | operator= (const Mesh &)=delete |
| Broken assignment operator. More... | |
| virtual | ~Mesh () |
| Virtual Destructor to clean up all memory. More... | |
| void | flush_element_and_node_storage () |
| Flush storage for elements and nodes by emptying the vectors that store the pointers to them. This is useful if a particular mesh is only built to generate a small part of a bigger mesh. Once the elements and nodes have been created, they are typically copied into the new mesh and the auxiliary mesh can be deleted. However, if we simply call the destructor of the auxiliary mesh, it will also wipe out the nodes and elements, because it still "thinks" it's in charge of these... More... | |
| void | flush_element_storage () |
| Flush storage for elements (only) by emptying the vectors that store the pointers to them. This is useful if a particular mesh is only built to generate a small part of a bigger mesh. Once the elements and nodes have been created, they are typically copied into the new mesh and the auxiliary mesh can be deleted. However, if we simply call the destructor of the auxiliary mesh, it will also wipe out the nodes and elements, because it still "thinks" it's in charge of these... More... | |
| void | flush_node_storage () |
| Flush storage for nodes (only) by emptying the vectors that store the pointers to them. More... | |
| Node *& | node_pt (const unsigned long &n) |
| Return pointer to global node n. More... | |
| Node * | node_pt (const unsigned long &n) const |
| Return pointer to global node n (const version) More... | |
| GeneralisedElement *& | element_pt (const unsigned long &e) |
| Return pointer to element e. More... | |
| GeneralisedElement * | element_pt (const unsigned long &e) const |
| Return pointer to element e (const version) More... | |
| const Vector< GeneralisedElement * > & | element_pt () const |
| Return reference to the Vector of elements. More... | |
| Vector< GeneralisedElement * > & | element_pt () |
| Return reference to the Vector of elements. More... | |
| FiniteElement * | finite_element_pt (const unsigned &e) const |
| Upcast (downcast?) to FiniteElement (needed to access FiniteElement member functions). More... | |
| Node *& | boundary_node_pt (const unsigned &b, const unsigned &n) |
| Return pointer to node n on boundary b. More... | |
| Node * | boundary_node_pt (const unsigned &b, const unsigned &n) const |
| Return pointer to node n on boundary b. More... | |
| void | set_nboundary (const unsigned &nbound) |
| Set the number of boundaries in the mesh. More... | |
| void | remove_boundary_nodes () |
| Clear all pointers to boundary nodes. More... | |
| void | remove_boundary_nodes (const unsigned &b) |
| Remove all information about nodes stored on the b-th boundary of the mesh. More... | |
| void | remove_boundary_node (const unsigned &b, Node *const &node_pt) |
| Remove a node from the boundary b. More... | |
| void | add_boundary_node (const unsigned &b, Node *const &node_pt) |
| Add a (pointer to) a node to the b-th boundary. More... | |
| void | copy_boundary_node_data_from_nodes () |
| Replace existing boundary node lookup schemes with new schemes created using the boundary data stored in the nodes. More... | |
| bool | boundary_coordinate_exists (const unsigned &i) const |
| Indicate whether the i-th boundary has an intrinsic coordinate. More... | |
| unsigned long | nelement () const |
| Return number of elements in the mesh. More... | |
| unsigned long | nnode () const |
| Return number of nodes in the mesh. More... | |
| unsigned | ndof_types () const |
| Return number of dof types in mesh. More... | |
| unsigned | elemental_dimension () const |
| Return number of elemental dimension in mesh. More... | |
| unsigned | nodal_dimension () const |
| Return number of nodal dimension in mesh. More... | |
| void | add_node_pt (Node *const &node_pt) |
| Add a (pointer to a) node to the mesh. More... | |
| void | add_element_pt (GeneralisedElement *const &element_pt) |
| Add a (pointer to) an element to the mesh. More... | |
| virtual void | node_update (const bool &update_all_solid_nodes=false) |
| Update nodal positions in response to changes in the domain shape. Uses the FiniteElement::get_x(...) function for FiniteElements and doesn't do anything for other element types. If a MacroElement pointer has been set for a FiniteElement, the MacroElement representation is used to update the nodal positions; if not get_x(...) uses the FE interpolation and thus leaves the nodal positions unchanged. Virtual, so it can be overloaded by specific meshes, such as AlgebraicMeshes or SpineMeshes. Generally, this function updates the position of all nodes in response to changes in the boundary position. However, we ignore all SolidNodes since their position is computed as part of the solution – unless the bool flag is set to true. Such calls are typically made when the initial mesh is created and/or after a mesh has been refined repeatedly before the start of the computation. More... | |
| virtual void | reorder_nodes (const bool &use_old_ordering=true) |
| Re-order nodes in the order in which they appear in elements – can be overloaded for more efficient re-ordering. More... | |
| virtual void | get_node_reordering (Vector< Node * > &reordering, const bool &use_old_ordering=true) const |
| Get a reordering of the nodes in the order in which they appear in elements – can be overloaded for more efficient re-ordering. More... | |
| template<class BULK_ELEMENT , template< class > class FACE_ELEMENT> | |
| void | build_face_mesh (const unsigned &b, Mesh *const &face_mesh_pt) |
| Constuct a Mesh of FACE_ELEMENTs along the b-th boundary of the mesh (which contains elements of type BULK_ELEMENT) More... | |
| unsigned | self_test () |
| Self-test: Check elements and nodes. Return 0 for OK. More... | |
| void | max_and_min_element_size (double &max_size, double &min_size) |
| Determine max and min area for all FiniteElements in the mesh (non-FiniteElements are ignored) More... | |
| double | total_size () |
| Determine the sum of all "sizes" of the FiniteElements in the mesh (non-FiniteElements are ignored). This gives the length/area/volume occupied by the mesh. More... | |
| void | check_inverted_elements (bool &mesh_has_inverted_elements, std::ofstream &inverted_element_file) |
| Check for inverted elements and report outcome in boolean variable. This visits all elements at their integration points and checks if the Jacobian of the mapping between local and global coordinates is positive – using the same test that would be carried out (but only in PARANOID mode) during the assembly of the elements' Jacobian matrices. Inverted elements are output in inverted_element_file (if the stream is open). More... | |
| void | check_inverted_elements (bool &mesh_has_inverted_elements) |
| Check for inverted elements and report outcome in boolean variable. This visits all elements at their integration points and checks if the Jacobian of the mapping between local and global coordinates is positive – using the same test that would be carried out (but only in PARANOID mode) during the assembly of the elements' Jacobian matrices. More... | |
| unsigned | check_for_repeated_nodes (const double &epsilon=1.0e-12) |
| Check for repeated nodes within a given spatial tolerance. Return (0/1) for (pass/fail). More... | |
| Vector< Node * > | prune_dead_nodes () |
| Prune nodes. Nodes that have been marked as obsolete are removed from the mesh (and its boundary-node scheme). Returns vector of pointers to deleted nodes. More... | |
| unsigned | nboundary () const |
| Return number of boundaries. More... | |
| unsigned long | nboundary_node (const unsigned &ibound) const |
| Return number of nodes on a particular boundary. More... | |
| FiniteElement * | boundary_element_pt (const unsigned &b, const unsigned &e) const |
| Return pointer to e-th finite element on boundary b. More... | |
| Node * | get_some_non_boundary_node () const |
| Find a node not on any boundary in mesh_pt (useful for pinning a single node in a purely Neumann problem so that it is fully determined). More... | |
| unsigned | nboundary_element (const unsigned &b) const |
| Return number of finite elements that are adjacent to boundary b. More... | |
| int | face_index_at_boundary (const unsigned &b, const unsigned &e) const |
| For the e-th finite element on boundary b, return int to indicate the face_index of the face adjacent to the boundary. This is consistent with input required during the generation of FaceElements. More... | |
| virtual void | dump (std::ofstream &dump_file, const bool &use_old_ordering=true) const |
| Dump the data in the mesh into a file for restart. More... | |
| void | dump (const std::string &dump_file_name, const bool &use_old_ordering=true) const |
| Dump the data in the mesh into a file for restart. More... | |
| virtual void | read (std::ifstream &restart_file) |
| Read solution from restart file. More... | |
| void | output_paraview (std::ofstream &file_out, const unsigned &nplot) const |
| Output in paraview format into specified file. Breaks up each element into sub-elements for plotting purposes. We assume that all elements are of the same type (fct will break break (in paranoid mode) if paraview output fcts of the elements are inconsistent). More... | |
| void | output_fct_paraview (std::ofstream &file_out, const unsigned &nplot, FiniteElement::SteadyExactSolutionFctPt exact_soln_pt) const |
| Output in paraview format into specified file. Breaks up each element into sub-elements for plotting purposes. We assume that all elements are of the same type (fct will break break (in paranoid mode) if paraview output fcts of the elements are inconsistent). More... | |
| void | output_fct_paraview (std::ofstream &file_out, const unsigned &nplot, const double &time, FiniteElement::UnsteadyExactSolutionFctPt exact_soln_pt) const |
| Output in paraview format into specified file. Breaks up each element into sub-elements for plotting purposes. We assume that all elements are of the same type (fct will break break (in paranoid mode) if paraview output fcts of the elements are inconsistent). More... | |
| void | output (std::ostream &outfile) |
| Output for all elements. More... | |
| void | output (std::ostream &outfile, const unsigned &n_plot) |
| Output at f(n_plot) points in each element. More... | |
| void | output (FILE *file_pt) |
| Output for all elements (C-style output) More... | |
| void | output (FILE *file_pt, const unsigned &nplot) |
| Output at f(n_plot) points in each element (C-style output) More... | |
| void | output (const std::string &output_filename) |
| Output for all elements. More... | |
| void | output (const std::string &output_filename, const unsigned &n_plot) |
| Output at f(n_plot) points in each element. More... | |
| void | output_fct (std::ostream &outfile, const unsigned &n_plot, FiniteElement::SteadyExactSolutionFctPt) |
| Output a given Vector function at f(n_plot) points in each element. More... | |
| void | output_fct (std::ostream &outfile, const unsigned &n_plot, const double &time, FiniteElement::UnsteadyExactSolutionFctPt) |
| Output a given time-dep. Vector function at f(n_plot) points in each element. More... | |
| void | output_boundaries (std::ostream &outfile) |
| Output the nodes on the boundaries (into separate tecplot zones) More... | |
| void | output_boundaries (const std::string &output_filename) |
| Output the nodes on the boundaries (into separate tecplot zones). Specify filename. More... | |
| void | assign_initial_values_impulsive () |
| Assign initial values for an impulsive start. More... | |
| void | shift_time_values () |
| Shift time-dependent data along for next timestep: Deal with nodal Data/positions and the element's internal Data. More... | |
| void | calculate_predictions () |
| Calculate predictions for all Data and positions associated with the mesh, usually used in adaptive time-stepping. More... | |
| void | set_nodal_and_elemental_time_stepper (TimeStepper *const &time_stepper_pt, const bool &preserve_existing_data) |
| Set the timestepper associated with all nodal and elemental data stored in the mesh. More... | |
| virtual void | set_mesh_level_time_stepper (TimeStepper *const &time_stepper_pt, const bool &preserve_existing_data) |
| Function that can be used to set any additional timestepper data stored at the Mesh (as opposed to nodal and elemental) levels. This is virtual so that it can be overloaded in the appropriate Meshes. Examples include the SpineMeshes and adaptive triangle and tet meshes. More... | |
| void | set_consistent_pinned_values_for_continuation (ContinuationStorageScheme *const &continuation_stepper_pt) |
| Set consistent values for pinned data in continuation. More... | |
| bool | does_pointer_correspond_to_mesh_data (double *const ¶meter_pt) |
| Does the double pointer correspond to any mesh data. More... | |
| void | set_nodal_time_stepper (TimeStepper *const &time_stepper_pt, const bool &preserve_existing_data) |
| Set the timestepper associated with the nodal data in the mesh. More... | |
| void | set_elemental_internal_time_stepper (TimeStepper *const &time_stepper_pt, const bool &preserve_existing_data) |
| Set the timestepper associated with the internal data stored within elements in the meah. More... | |
| virtual void | compute_norm (double &norm) |
| Compute norm of solution by summing contributions of compute_norm(...) for all constituent elements in the mesh. What that norm means depends on what's defined in the element's function; may need to take the square root afterwards if the elements compute the square of the L2 norm, say. More... | |
| virtual void | compute_norm (Vector< double > &norm) |
| Compute norm of solution by summing contributions of compute_norm(...) for all constituent elements in the mesh. What that norm means depends on what's defined in the element's function; may need to take the square root afterwards if the elements compute the square of the L2 norm, say. More... | |
| virtual void | compute_error (std::ostream &outfile, FiniteElement::UnsteadyExactSolutionFctPt exact_soln_pt, const double &time, double &error, double &norm) |
| Plot error when compared against a given exact solution. Also returns the norm of the error and that of the exact solution. More... | |
| virtual void | compute_error (std::ostream &outfile, FiniteElement::SteadyExactSolutionFctPt exact_soln_pt, double &error, double &norm) |
| Plot error when compared against a given time-depdendent exact solution. Also returns the norm of the error and that of the exact solution. More... | |
| virtual void | compute_error (FiniteElement::SteadyExactSolutionFctPt exact_soln_pt, double &error, double &norm) |
| Plot error when compared against a given time-dependent exact solution. Also returns the norm of the error and that of the exact solution. More... | |
| virtual void | compute_error (FiniteElement::SteadyExactSolutionFctPt exact_soln_pt, Vector< double > &error, Vector< double > &norm) |
| Plot error when compared against a given time-dependent exact solution. Also returns the norm of the error and that of the exact solution. More... | |
| virtual void | compute_error (std::ostream &outfile, FiniteElement::UnsteadyExactSolutionFctPt exact_soln_pt, const double &time, Vector< double > &error, Vector< double > &norm) |
| Plot error when compared against a given time-depdendent exact solution. Also returns the norm of the error and that of the exact solution. Version with vectors of norms and errors so that different variables' norms and errors can be returned individually. More... | |
| virtual void | compute_error (std::ostream &outfile, FiniteElement::SteadyExactSolutionFctPt exact_soln_pt, Vector< double > &error, Vector< double > &norm) |
| Plot error when compared against a given time-depdendent exact solution. Also returns the norm of the error and that of the exact solution. Version with vectors of norms and errors so that different variables' norms and errors can be returned individually. More... | |
| virtual void | compute_error (FiniteElement::UnsteadyExactSolutionFctPt exact_soln_pt, const double &time, double &error, double &norm) |
| Returns the norm of the error and that of the exact solution. More... | |
| virtual void | compute_error (FiniteElement::UnsteadyExactSolutionFctPt exact_soln_pt, const double &time, Vector< double > &error, Vector< double > &norm) |
| Returns the norm of the error and that of the exact solution. Version with vectors of norms and errors so that different variables' norms and errors can be returned individually. More... | |
| bool | is_mesh_distributed () const |
| Boolean to indicate if Mesh has been distributed. More... | |
| OomphCommunicator * | communicator_pt () const |
| Read-only access fct to communicator (Null if mesh is not distributed, i.e. if we don't have mpi). More... | |
| void | set_communicator_pt (OomphCommunicator *comm_pt) |
| Function to set communicator (mesh is assumed to be distributed if the communicator pointer is non-null). Only defined if mpi is enabled becaus Comm_pt itself is only defined when mpi is enabled. More... | |
| void | set_keep_all_elements_as_halos () |
| Call this function to keep all the elements as halo elements. More... | |
| void | unset_keep_all_elements_as_halos () |
| Calll this function to unset the flag that keeps all elements in the mesh as halo elements. More... | |
| virtual void | distribute (OomphCommunicator *comm_pt, const Vector< unsigned > &element_domain, Vector< GeneralisedElement * > &deleted_element_pt, DocInfo &doc_info, const bool &report_stats, const bool &overrule_keep_as_halo_element_status) |
| Distribute the problem and doc; make this virtual to allow overloading for particular meshes where further work is required. Add to vector of pointers to deleted elements. More... | |
| void | distribute (OomphCommunicator *comm_pt, const Vector< unsigned > &element_domain, Vector< GeneralisedElement * > &deleted_element_pt, const bool &report_stats=false) |
| Distribute the problem Add to vector of pointers to deleted elements. More... | |
| void | prune_halo_elements_and_nodes (Vector< GeneralisedElement * > &deleted_element_pt, const bool &report_stats=false) |
| (Irreversibly) prune halo(ed) elements and nodes, usually after another round of refinement, to get rid of excessively wide halo layers. Note that the current mesh will be now regarded as the base mesh and no unrefinement relative to it will be possible once this function has been called. More... | |
| void | prune_halo_elements_and_nodes (Vector< GeneralisedElement * > &deleted_element_pt, DocInfo &doc_info, const bool &report_stats) |
| (Irreversibly) prune halo(ed) elements and nodes, usually after another round of refinement, to get rid of excessively wide halo layers. Note that the current mesh will be now regarded as the base mesh and no unrefinement relative to it will be possible once this function has been called. More... | |
| void | get_efficiency_of_mesh_distribution (double &av_efficiency, double &max_efficiency, double &min_efficiency) |
| Get efficiency of mesh distribution: In an ideal distribution without halo overhead, each processor would only hold its own elements. Efficieny per processor = (number of non-halo elements)/ (total number of elements). More... | |
| void | doc_mesh_distribution (DocInfo &doc_info) |
| Doc the mesh distribution, to be processed with tecplot macros. More... | |
| void | check_halo_schemes (DocInfo &doc_info, double &max_permitted_error_for_halo_check) |
| Check halo and shared schemes on the mesh. More... | |
| virtual void | classify_halo_and_haloed_nodes (DocInfo &doc_info, const bool &report_stats) |
| Classify the halo and haloed nodes in the mesh. Virtual so it can be overloaded to perform additional functionality (such as synchronising hanging nodes) in refineable meshes, say. More... | |
| virtual void | classify_halo_and_haloed_nodes (const bool &report_stats=false) |
| Classify the halo and haloed nodes in the mesh. Virtual so it can be overloaded to perform additional functionality (such as synchronising hanging nodes) in refineable meshes, say. More... | |
| void | synchronise_shared_nodes (const bool &report_stats) |
| Synchronise shared node lookup schemes to cater for the the case where: (1) a certain node on the current processor is halo with proc p (i.e. its non-halo counterpart lives on processor p) (2) that node is also exists (also as a halo) on another processor (q, say) where its non-halo counter part is also known to be on processor p. However, without calling this function the current processor does not necessarily know that it shares a node with processor q. This information can be required, e.g. when synchronising hanging node schemes over all processors. More... | |
| void | get_all_halo_data (std::map< unsigned, double * > &map_of_halo_data) |
| Get all the halo data stored in the mesh and add pointers to the data to the map, indexed by global equation number. More... | |
| Vector< GeneralisedElement * > | halo_element_pt (const unsigned &p) |
| Return vector of halo elements in this Mesh whose non-halo counterpart is held on processor p. More... | |
| Vector< GeneralisedElement * > | haloed_element_pt (const unsigned &p) |
| Return vector of haloed elements in this Mesh whose haloing counterpart is held on processor p. More... | |
| unsigned | nnon_halo_element () |
| Total number of non-halo elements in this mesh (Costly call computes result on the fly) More... | |
| unsigned | nroot_halo_element () |
| Total number of root halo elements in this Mesh. More... | |
| unsigned | nroot_halo_element (const unsigned &p) |
| Number of root halo elements in this Mesh whose non-halo counterpart is held on processor p. More... | |
| Vector< GeneralisedElement * > | root_halo_element_pt (const unsigned &p) |
| Vector of pointers to root halo elements in this Mesh whose non-halo counterpart is held on processor p. More... | |
| GeneralisedElement *& | root_halo_element_pt (const unsigned &p, const unsigned &e) |
| Access fct to the e-th root halo element in this Mesh whose non-halo counterpart is held on processor p. More... | |
| void | add_root_halo_element_pt (const unsigned &p, GeneralisedElement *&el_pt) |
| Add root halo element whose non-halo counterpart is held on processor p to this Mesh. More... | |
| unsigned | nhalo_node () |
| Total number of halo nodes in this Mesh. More... | |
| unsigned | nhalo_node (const unsigned &p) |
| Number of halo nodes in this Mesh whose non-halo counterpart is held on processor p. More... | |
| void | add_halo_node_pt (const unsigned &p, Node *&nod_pt) |
| Add halo node whose non-halo counterpart is held on processor p to the storage scheme for halo nodes. More... | |
| Node * | halo_node_pt (const unsigned &p, const unsigned &j) |
| Access fct to the j-th halo node in this Mesh whose non-halo counterpart is held on processor p. More... | |
| unsigned | nroot_haloed_element () |
| Total number of root haloed elements in this Mesh. More... | |
| unsigned | nroot_haloed_element (const unsigned &p) |
| Number of root haloed elements in this Mesh whose non-halo counterpart is held on processor p. More... | |
| Vector< GeneralisedElement * > | root_haloed_element_pt (const unsigned &p) |
| Vector of pointers to root haloed elements in this Mesh whose non-halo counterpart is held on processor p. More... | |
| GeneralisedElement *& | root_haloed_element_pt (const unsigned &p, const unsigned &e) |
| Access fct to the e-th root haloed element in this Mesh whose non-halo counterpart is held on processor p. More... | |
| void | add_root_haloed_element_pt (const unsigned &p, GeneralisedElement *&el_pt) |
| Add root haloed element whose non-halo counterpart is held on processor p to the storage scheme for haloed elements. Note: This does not add the element to the storage scheme for elements as it's understood to naturally live on this processor anyway! More... | |
| unsigned | nhaloed_node () |
| Total number of haloed nodes in this Mesh. More... | |
| unsigned | nhaloed_node (const unsigned &p) |
| Number of haloed nodes in this Mesh whose haloed counterpart is held on processor p. More... | |
| Node * | haloed_node_pt (const unsigned &p, const unsigned &j) |
| Access fct to the j-th haloed node in this Mesh whose halo counterpart is held on processor p. More... | |
| void | add_haloed_node_pt (const unsigned &p, Node *&nod_pt) |
| Add haloed node whose halo counterpart is held on processor p to the storage scheme for haloed nodes. More... | |
| void | disable_resizing_of_halo_nodes () |
| Function to suppress resizing of halo nodes – optmisation but call it at your own risk! More... | |
| void | enable_resizing_of_halo_nodes () |
| Function to (re-)enable resizing of halo nodes – this returns things to the default behaviour. More... | |
| void | disable_output_of_halo_elements () |
| Function to disable halo element output. More... | |
| void | enable_output_of_halo_elements () |
| Function to enable halo element output. More... | |
| unsigned | nshared_node () |
| Total number of shared nodes in this Mesh. More... | |
| void | doc_shared_nodes () |
| Doc shared nodes. More... | |
| unsigned | nshared_node (const unsigned &p) |
| Number of shared nodes in this Mesh who have a counterpart on processor p. More... | |
| Node * | shared_node_pt (const unsigned &p, const unsigned &j) |
| Access fct to the j-th shared node in this Mesh who has a counterpart on processor p. More... | |
| void | get_shared_node_pt (const unsigned &p, Vector< Node * > &shared_node_pt) |
| Get vector of pointers to shared nodes with processor p. Required for faster search in Missing_masters_functions::add_external_haloed_node_helper() and Missing_masters_functions::add_external_haloed_master_node_helper() More... | |
| void | add_shared_node_pt (const unsigned &p, Node *&nod_pt) |
| Add shared node whose counterpart is held on processor p to the storage scheme for shared nodes. (NB: ensure that this routine is called twice, once for each process) More... | |
| void | get_halo_node_stats (double &av_number, unsigned &max_number, unsigned &min_number) |
| Get halo node stats for this distributed mesh: Average/max/min number of halo nodes over all processors. Careful: Involves MPI Broadcasts and must therefore be called on all processors! More... | |
| void | get_haloed_node_stats (double &av_number, unsigned &max_number, unsigned &min_number) |
| Get haloed node stats for this distributed mesh: Average/max/min number of haloed nodes over all processors. Careful: Involves MPI Broadcasts and must therefore be called on all processors! More... | |
| void | output_external_halo_elements (std::ostream &outfile, const unsigned &n_plot=5) |
| Output all external halo elements. More... | |
| void | output_external_halo_elements (const unsigned &p, std::ostream &outfile, const unsigned &n_plot=5) |
| Output all external halo elements with processor p. More... | |
| void | output_external_haloed_elements (std::ostream &outfile, const unsigned &n_plot=5) |
| Output all external haloed elements. More... | |
| void | output_external_haloed_elements (const unsigned &p, std::ostream &outfile, const unsigned &n_plot=5) |
| Output all external haloed elements with processor p. More... | |
| unsigned | nexternal_halo_element () |
| Total number of external halo elements in this Mesh. More... | |
| unsigned | nexternal_halo_element (const unsigned &p) |
| Number of external halo elements in this Mesh whose non-halo counterpart is held on processor p. More... | |
| GeneralisedElement *& | external_halo_element_pt (const unsigned &p, const unsigned &e) |
| Access fct to the e-th external halo element in this Mesh whose non-halo counterpart is held on processor p. More... | |
| void | add_external_halo_element_pt (const unsigned &p, GeneralisedElement *&el_pt) |
| Add external halo element whose non-halo counterpart is held on processor p to this Mesh. More... | |
| unsigned | nexternal_haloed_element () |
| Total number of external haloed elements in this Mesh. More... | |
| unsigned | nexternal_haloed_element (const unsigned &p) |
| Number of external haloed elements in this Mesh whose non-halo counterpart is held on processor p. More... | |
| GeneralisedElement *& | external_haloed_element_pt (const unsigned &p, const unsigned &e) |
| Access fct to the e-th external haloed element in this Mesh whose non-halo counterpart is held on processor p. More... | |
| unsigned | add_external_haloed_element_pt (const unsigned &p, GeneralisedElement *&el_pt) |
| Add external haloed element whose non-halo counterpart is held on processor p to the storage scheme for haloed elements. More... | |
| unsigned | nexternal_halo_node () |
| Total number of external halo nodes in this Mesh. More... | |
| void | get_external_halo_node_pt (Vector< Node * > &external_halo_node_pt) |
| Get vector of pointers to all external halo nodes. More... | |
| unsigned | nexternal_halo_node (const unsigned &p) |
| Number of external halo nodes in this Mesh whose non-halo (external) counterpart is held on processor p. More... | |
| void | add_external_halo_node_pt (const unsigned &p, Node *&nod_pt) |
| Add external halo node whose non-halo (external) counterpart is held on processor p to the storage scheme for halo nodes. More... | |
| Node *& | external_halo_node_pt (const unsigned &p, const unsigned &j) |
| Access fct to the j-th external halo node in this Mesh whose non-halo external counterpart is held on processor p. More... | |
| Vector< Node * > | external_halo_node_pt (const unsigned &p) |
| Access fct to vector of external halo node in this Mesh whose non-halo external counterpart is held on processor p. (read only) More... | |
| void | set_external_halo_node_pt (const unsigned &p, const Vector< Node * > &external_halo_node_pt) |
| Set vector of external halo node in this Mesh whose non-halo external counterpart is held on processor p. More... | |
| void | null_external_halo_node (const unsigned &p, Node *nod_pt) |
| Null out specified external halo node (used when deleting duplicates) More... | |
| void | remove_null_pointers_from_external_halo_node_storage () |
| Consolidate external halo node storage by removing nulled out pointes in external halo and haloed schemes. More... | |
| unsigned | nexternal_haloed_node () |
| Total number of external haloed nodes in this Mesh. More... | |
| unsigned | nexternal_haloed_node (const unsigned &p) |
| Number of external haloed nodes in this Mesh whose halo (external) counterpart is held on processor p. More... | |
| Node *& | external_haloed_node_pt (const unsigned &p, const unsigned &j) |
| Access fct to the j-th external haloed node in this Mesh whose halo external counterpart is held on processor p. More... | |
| unsigned | add_external_haloed_node_pt (const unsigned &p, Node *&nod_pt) |
| Add external haloed node whose halo (external) counterpart is held on processor p to the storage scheme for haloed nodes. More... | |
| Vector< Node * > | external_haloed_node_pt (const unsigned &p) |
| Access fct to vector of external haloed node in this Mesh whose halo external counterpart is held on processor p. (read only) More... | |
| void | set_external_haloed_node_pt (const unsigned &p, const Vector< Node * > &external_haloed_node_pt) |
| Set vector of external haloed node in this Mesh whose halo external counterpart is held on processor p. More... | |
| std::set< int > | external_halo_proc () |
| Return the set of processors that hold external halo nodes. This is required to avoid having to pass a communicator into the node_update functions for Algebraic-based and MacroElement-based Meshes. More... | |
| virtual void | create_shared_boundaries (OomphCommunicator *comm_pt, const Vector< unsigned > &element_domain, const Vector< GeneralisedElement * > &backed_up_el_pt, const Vector< FiniteElement * > &backed_up_f_el_pt, std::map< Data *, std::set< unsigned >> &processors_associated_with_data, const bool &overrule_keep_as_halo_element_status) |
| Creates the shared boundaries, only used in unstructured meshes In this case with the "TriangleMesh" class. More... | |
| virtual unsigned | try_to_add_root_haloed_element_pt (const unsigned &p, GeneralisedElement *&el_pt) |
| virtual unsigned | try_to_add_haloed_node_pt (const unsigned &p, Node *&nod_pt) |
| void | delete_all_external_storage () |
| Wipe the storage for all externally-based elements. More... | |
Public Attributes | |
| bool | Output_halo_elements |
| Bool for output of halo elements. More... | |
Static Public Attributes | |
| static Steady< 0 > | Default_TimeStepper |
| Default Steady Timestepper, to be used in default arguments to Mesh constructors. More... | |
| static bool | Suppress_warning_about_empty_mesh_level_time_stepper_function |
| Boolean used to control warning about empty mesh level timestepper function. More... | |
Protected Member Functions | |
| void | setup_shared_node_scheme () |
| Setup shared node scheme. More... | |
| unsigned long | assign_global_eqn_numbers (Vector< double * > &Dof_pt) |
| Assign the global equation numbers in the Data stored at the nodes and also internal element Data. Also, build (via push_back) the Vector of pointers to the dofs (variables). More... | |
| void | describe_dofs (std::ostream &out, const std::string ¤t_string) const |
| Function to describe the dofs of the Mesh. The ostream specifies the output stream to which the description is written; the string stores the currently assembled output that is ultimately written to the output stream by Data::describe_dofs(...); it is typically built up incrementally as we descend through the call hierarchy of this function when called from Problem::describe_dofs(...) More... | |
| void | describe_local_dofs (std::ostream &out, const std::string ¤t_string) const |
| Function to describe the local dofs of the elements. The ostream specifies the output stream to which the description is written; the string stores the currently assembled output that is ultimately written to the output stream by Data::describe_dofs(...); it is typically built up incrementally as we descend through the call hierarchy of this function when called from Problem::describe_dofs(...) More... | |
| void | assign_local_eqn_numbers (const bool &store_local_dof_pt) |
| Assign the local equation numbers in all elements If the boolean argument is true then also store pointers to dofs. More... | |
| void | convert_to_boundary_node (Node *&node_pt, const Vector< FiniteElement * > &finite_element_pt) |
| A function that upgrades an ordinary node to a boundary node We shouldn't ever really use this, but it does make life that bit easier for the lazy mesh writer. The pointer to the node is replaced by a pointer to the new boundary node in all element look-up schemes and in the mesh's Node_pt vector. The new node is also addressed by node_pt on return from the function. More... | |
| void | convert_to_boundary_node (Node *&node_pt) |
| A function that upgrades an ordinary node to a boundary node. All pointers to the node from the mesh's elements are found. and replaced by pointers to the new boundary node. If the node is present in the mesh's list of nodes, that pointer is also replaced. Finally, the pointer argument node_pt addresses the new node on return from the function. We shouldn't ever really use this, but it does make life that bit easier for the lazy mesh writer. More... | |
Protected Attributes | |
| Vector< Vector< Node * > > | Boundary_node_pt |
| Vector of Vector of pointers to nodes on the boundaries: Boundary_node_pt(b,n). Note that this is private to force the use of the add_boundary_node() function, which ensures that the reverse look-up schemes for the nodes are set up. More... | |
| bool | Lookup_for_elements_next_boundary_is_setup |
| Flag to indicate that the lookup schemes for elements that are adjacent to the boundaries has been set up. More... | |
| Vector< Vector< FiniteElement * > > | Boundary_element_pt |
| Vector of Vector of pointers to elements on the boundaries: Boundary_element_pt(b,e) More... | |
| Vector< Vector< int > > | Face_index_at_boundary |
| For the e-th finite element on boundary b, this is the index of the face that lies along that boundary. More... | |
| std::map< unsigned, Vector< GeneralisedElement * > > | Root_halo_element_pt |
| Map of vectors holding the pointers to the root halo elements. More... | |
| std::map< unsigned, Vector< GeneralisedElement * > > | Root_haloed_element_pt |
| Map of vectors holding the pointers to the root haloed elements. More... | |
| std::map< unsigned, Vector< Node * > > | Halo_node_pt |
| Map of vectors holding the pointers to the halo nodes. More... | |
| std::map< unsigned, Vector< Node * > > | Haloed_node_pt |
| Map of vectors holding the pointers to the haloed nodes. More... | |
| std::map< unsigned, Vector< Node * > > | Shared_node_pt |
| Map of vectors holding the pointers to the shared nodes. These are all the nodes that are on two "neighbouring" processes (the halo(ed) lookup scheme depends upon which processor is in charge. More... | |
| OomphCommunicator * | Comm_pt |
| Pointer to communicator – set to NULL if mesh is not distributed. More... | |
| std::map< unsigned, Vector< GeneralisedElement * > > | External_halo_element_pt |
| External halo(ed) elements are created as and when they are needed to act as source elements for the particular process's mesh. The storage is wiped and rebuilt every time the mesh is refined. More... | |
| std::map< unsigned, Vector< GeneralisedElement * > > | External_haloed_element_pt |
| Map of vectors holding the pointers to the external haloed elements. More... | |
| std::map< unsigned, Vector< Node * > > | External_halo_node_pt |
| Map of vectors holding the pointers to the external halo nodes. More... | |
| std::map< unsigned, Vector< Node * > > | External_haloed_node_pt |
| Map of vectors holding the pointers to the external haloed nodes. More... | |
| bool | Keep_all_elements_as_halos |
| bool to indicate whether to keep all elements in a mesh as halos or not More... | |
| bool | Resize_halo_nodes_not_required |
| Set this to true to suppress resizing of halo nodes (at your own risk!) More... | |
| Vector< Node * > | Node_pt |
| Vector of pointers to nodes. More... | |
| Vector< GeneralisedElement * > | Element_pt |
| Vector of pointers to generalised elements. More... | |
| std::vector< bool > | Boundary_coordinate_exists |
| Vector of boolean data that indicates whether the boundary coordinates have been set for the boundary. More... | |
Friends | |
| class | Problem |
| Problem is a friend. More... | |
Detailed Description
A general mesh class.
The main components of a Mesh are:
- pointers to its Nodes
- pointers to its Elements
- pointers to its boundary Nodes
Member Typedef Documentation
◆ SteadyExactSolutionFctPt
◆ UnsteadyExactSolutionFctPt
Constructor & Destructor Documentation
◆ Mesh() [1/3]
|
inline |
Default constructor.
Definition at line 236 of file mesh.h.
References Comm_pt, Keep_all_elements_as_halos, Lookup_for_elements_next_boundary_is_setup, Output_halo_elements, and Resize_halo_nodes_not_required.
◆ Mesh() [2/3]
Constructor builds combined mesh from the meshes specified. Note: This simply merges the meshes' elements and nodes (ignoring duplicates; no boundary information etc. is created).
Definition at line 257 of file mesh.h.
References Comm_pt, and merge_meshes().
◆ Mesh() [3/3]
|
delete |
Broken copy constructor.
◆ ~Mesh()
|
virtual |
Virtual Destructor to clean up all memory.
Definition at line 650 of file mesh.cc.
References delete_all_external_storage(), Element_pt, i, and Node_pt.
Member Function Documentation
◆ add_boundary_node()
| void oomph::Mesh::add_boundary_node | ( | const unsigned & | b, |
| Node *const & | node_pt | ||
| ) |
Add a (pointer to) a node to the b-th boundary.
Add the node node_pt to the b-th boundary of the mesh This function also sets the boundary information in the Node itself.
Definition at line 243 of file mesh.cc.
References oomph::Node::add_to_boundary(), Boundary_node_pt, and node_pt().
Referenced by oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::BrethertonSpineMesh(), oomph::RefineableQElement< 3 >::build(), oomph::RefineableQElement< 2 >::build(), oomph::GmshTetMesh< ELEMENT >::build_from_scaffold(), oomph::ChannelWithLeafletMesh< ELEMENT >::ChannelWithLeafletMesh(), oomph::CollapsibleChannelMesh< ELEMENT >::CollapsibleChannelMesh(), oomph::Multi_domain_functions::construct_new_external_halo_master_node_helper(), oomph::Missing_masters_functions::construct_new_external_halo_master_node_helper(), oomph::Multi_domain_functions::construct_new_external_halo_node_helper(), oomph::Missing_masters_functions::construct_new_external_halo_node_helper(), oomph::GmshTetScaffoldMesh::create_mesh_from_msh_file(), oomph::EighthSphereMesh< ELEMENT >::EighthSphereMesh(), oomph::FSIDrivenCavityMesh< ELEMENT >::FSIDrivenCavityMesh(), oomph::FullCircleMesh< ELEMENT >::FullCircleMesh(), oomph::GeompackQuadScaffoldMesh::GeompackQuadScaffoldMesh(), oomph::PRefineableQElement< 2, INITIAL_NNODE_1D >::p_refine(), oomph::PRefineableQElement< 3, INITIAL_NNODE_1D >::p_refine(), oomph::QuarterCircleSectorMesh< ELEMENT >::QuarterCircleSectorMesh(), oomph::QuarterTubeMesh< ELEMENT >::QuarterTubeMesh(), oomph::PRefineableQElement< 2, INITIAL_NNODE_1D >::rebuild_from_sons(), oomph::PRefineableQElement< 3, INITIAL_NNODE_1D >::rebuild_from_sons(), oomph::RefineableQSpectralElement< 3 >::rebuild_from_sons(), oomph::RefineableQSpectralElement< 2 >::rebuild_from_sons(), oomph::RectangleWithHoleMesh< ELEMENT >::RectangleWithHoleMesh(), oomph::SimpleCubicScaffoldTetMesh::SimpleCubicScaffoldTetMesh(), oomph::SimpleRectangularTriMesh< ELEMENT >::SimpleRectangularTriMesh(), oomph::TetgenScaffoldMesh::TetgenScaffoldMesh(), oomph::ThinLayerBrickOnTetMesh< ELEMENT >::ThinLayerBrickOnTetMesh(), oomph::TriangleScaffoldMesh::TriangleScaffoldMesh(), and oomph::TubeMesh< ELEMENT >::TubeMesh().
◆ add_element_pt()
|
inline |
Add a (pointer to) an element to the mesh.
Definition at line 617 of file mesh.h.
References Element_pt, and element_pt().
Referenced by oomph::BackupMeshForProjection< GEOMETRIC_ELEMENT >::BackupMeshForProjection(), build_face_mesh(), oomph::RefineableTriangleMesh< ELEMENT >::create_sorted_face_mesh_representation(), distribute(), oomph::LinearElasticitySmoothMesh< LINEAR_ELASTICITY_ELEMENT >::operator()(), oomph::PoissonSmoothMesh< POISSON_ELEMENT >::operator()(), prune_halo_elements_and_nodes(), oomph::WomersleyMesh< WOMERSLEY_ELEMENT >::WomersleyMesh(), and oomph::WomersleyProblem< ELEMENT, DIM >::WomersleyProblem().
◆ add_external_halo_element_pt()
|
inline |
Add external halo element whose non-halo counterpart is held on processor p to this Mesh.
Definition at line 2259 of file mesh.h.
References External_halo_element_pt, and oomph::GeneralisedElement::set_halo().
Referenced by oomph::Multi_domain_functions::construct_new_external_halo_master_node_helper(), oomph::Missing_masters_functions::construct_new_external_halo_master_node_helper(), and oomph::Multi_domain_functions::create_external_halo_elements().
◆ add_external_halo_node_pt()
|
inline |
Add external halo node whose non-halo (external) counterpart is held on processor p to the storage scheme for halo nodes.
Definition at line 2368 of file mesh.h.
References External_halo_node_pt, and oomph::Data::set_halo().
Referenced by oomph::Multi_domain_functions::construct_new_external_halo_master_node_helper(), oomph::Missing_masters_functions::construct_new_external_halo_master_node_helper(), oomph::Multi_domain_functions::construct_new_external_halo_node_helper(), and oomph::Missing_masters_functions::construct_new_external_halo_node_helper().
◆ add_external_haloed_element_pt()
| unsigned oomph::Mesh::add_external_haloed_element_pt | ( | const unsigned & | p, |
| GeneralisedElement *& | el_pt | ||
| ) |
Add external haloed element whose non-halo counterpart is held on processor p to the storage scheme for haloed elements.
Add external haloed element whose non-halo counterpart is held on processor p to the storage scheme for external haloed elements. If the element is already in the storage scheme then return its index.
Definition at line 9475 of file mesh.cc.
References External_haloed_element_pt, and nexternal_haloed_element().
Referenced by oomph::Missing_masters_functions::get_required_master_nodal_information_helper(), oomph::Multi_domain_functions::get_required_master_nodal_information_helper(), and oomph::Multi_domain_functions::locate_zeta_for_missing_coordinates().
◆ add_external_haloed_node_pt()
| unsigned oomph::Mesh::add_external_haloed_node_pt | ( | const unsigned & | p, |
| Node *& | nod_pt | ||
| ) |
Add external haloed node whose halo (external) counterpart is held on processor p to the storage scheme for haloed nodes.
Add external haloed node whose halo (external) counterpart is held on processor p to the storage scheme for external haloed nodes. If the node is already in the storage scheme then return its index.
Definition at line 9516 of file mesh.cc.
References External_haloed_node_pt, and nexternal_haloed_node().
Referenced by oomph::Missing_masters_functions::add_external_haloed_master_node_helper(), oomph::Multi_domain_functions::add_external_haloed_master_node_helper(), oomph::Missing_masters_functions::add_external_haloed_node_helper(), and oomph::Multi_domain_functions::add_external_haloed_node_helper().
◆ add_halo_node_pt()
|
inline |
Add halo node whose non-halo counterpart is held on processor p to the storage scheme for halo nodes.
Definition at line 1906 of file mesh.h.
References Halo_node_pt.
Referenced by classify_halo_and_haloed_nodes().
◆ add_haloed_node_pt()
|
inline |
Add haloed node whose halo counterpart is held on processor p to the storage scheme for haloed nodes.
Definition at line 2021 of file mesh.h.
References Haloed_node_pt.
Referenced by classify_halo_and_haloed_nodes().
◆ add_node_pt()
|
inline |
Add a (pointer to a) node to the mesh.
Definition at line 611 of file mesh.h.
References Node_pt, and node_pt().
Referenced by oomph::RefineableQElement< 3 >::build(), oomph::RefineableQElement< 1 >::build(), oomph::RefineableQElement< 2 >::build(), build_face_mesh(), oomph::ChannelWithLeafletMesh< ELEMENT >::ChannelWithLeafletMesh(), oomph::LinearElasticitySmoothMesh< LINEAR_ELASTICITY_ELEMENT >::operator()(), oomph::PoissonSmoothMesh< POISSON_ELEMENT >::operator()(), oomph::PRefineableQElement< 1, INITIAL_NNODE_1D >::p_refine(), oomph::PRefineableQElement< 2, INITIAL_NNODE_1D >::p_refine(), oomph::PRefineableQElement< 3, INITIAL_NNODE_1D >::p_refine(), prune_halo_elements_and_nodes(), oomph::PRefineableQElement< 1, INITIAL_NNODE_1D >::rebuild_from_sons(), oomph::PRefineableQElement< 2, INITIAL_NNODE_1D >::rebuild_from_sons(), oomph::PRefineableQElement< 3, INITIAL_NNODE_1D >::rebuild_from_sons(), oomph::RefineableQSpectralElement< 3 >::rebuild_from_sons(), oomph::RefineableQSpectralElement< 1 >::rebuild_from_sons(), oomph::RefineableQSpectralElement< 2 >::rebuild_from_sons(), and oomph::TetMeshBase::split_elements_in_corners().
◆ add_root_halo_element_pt()
|
inline |
Add root halo element whose non-halo counterpart is held on processor p to this Mesh.
Definition at line 1871 of file mesh.h.
References Root_halo_element_pt, and oomph::GeneralisedElement::set_halo().
Referenced by distribute().
◆ add_root_haloed_element_pt()
|
inline |
Add root haloed element whose non-halo counterpart is held on processor p to the storage scheme for haloed elements. Note: This does not add the element to the storage scheme for elements as it's understood to naturally live on this processor anyway!
Definition at line 1977 of file mesh.h.
References Root_haloed_element_pt.
Referenced by distribute().
◆ add_shared_node_pt()
|
inline |
Add shared node whose counterpart is held on processor p to the storage scheme for shared nodes. (NB: ensure that this routine is called twice, once for each process)
Definition at line 2133 of file mesh.h.
References Shared_node_pt.
Referenced by classify_halo_and_haloed_nodes(), setup_shared_node_scheme(), and synchronise_shared_nodes().
◆ assign_global_eqn_numbers()
|
protected |
Assign the global equation numbers in the Data stored at the nodes and also internal element Data. Also, build (via push_back) the Vector of pointers to the dofs (variables).
Assign (global) equation numbers to the nodes.
Definition at line 677 of file mesh.cc.
References Element_pt, i, and Node_pt.
Referenced by oomph::Problem::assign_eqn_numbers().
◆ assign_initial_values_impulsive()
| void oomph::Mesh::assign_initial_values_impulsive | ( | ) |
Assign initial values for an impulsive start.
Assign the initial values for an impulsive start, which is acheived by looping over all data in the mesh (internal element data and data stored at nodes) and setting the calling the assign_initial_values_impulsive() function for each data's timestepper.
Definition at line 2288 of file mesh.cc.
References e, element_pt(), nelement(), nnode(), and Node_pt.
Referenced by oomph::Problem::assign_initial_values_impulsive().
◆ assign_local_eqn_numbers()
|
protected |
Assign the local equation numbers in all elements If the boolean argument is true then also store pointers to dofs.
Assign local equation numbers in all elements.
Definition at line 765 of file mesh.cc.
References Element_pt, and i.
Referenced by oomph::Problem::assign_eqn_numbers(), and oomph::Problem::synchronise_eqn_numbers().
◆ boundary_coordinate_exists()
|
inline |
Indicate whether the i-th boundary has an intrinsic coordinate.
Definition at line 565 of file mesh.h.
References Boundary_coordinate_exists, and i.
Referenced by oomph::RefineableQElement< 3 >::build(), oomph::RefineableQElement< 2 >::build(), oomph::PRefineableQElement< 2, INITIAL_NNODE_1D >::p_refine(), oomph::PRefineableQElement< 3, INITIAL_NNODE_1D >::p_refine(), oomph::PRefineableQElement< 2, INITIAL_NNODE_1D >::rebuild_from_sons(), oomph::PRefineableQElement< 3, INITIAL_NNODE_1D >::rebuild_from_sons(), oomph::RefineableQSpectralElement< 3 >::rebuild_from_sons(), and oomph::RefineableQSpectralElement< 2 >::rebuild_from_sons().
◆ boundary_element_pt()
|
inline |
Return pointer to e-th finite element on boundary b.
Definition at line 840 of file mesh.h.
References Boundary_element_pt, e, and Lookup_for_elements_next_boundary_is_setup.
Referenced by oomph::RefineableGmshTetMesh< ELEMENT >::adapt(), oomph::RefineableTetgenMesh< ELEMENT >::adapt(), oomph::RefineableTriangleMesh< ELEMENT >::adapt(), oomph::TreeBasedRefineableMeshBase::adapt_mesh(), build_face_mesh(), doc_boundary_coordinates(), doc_mesh_distribution(), oomph::ExtrudedCubeMeshFromQuadMesh< ELEMENT >::get_element_boundary_information(), oomph::NavierStokesSchurComplementPreconditioner::get_pressure_advection_diffusion_matrix(), oomph::NonLinearElasticitySmoothMesh< ELEMENT >::operator()(), oomph::TreeBasedRefineableMeshBase::p_adapt_mesh(), oomph::PMLQuadMeshBase< ELEMENT >::pml_locate_zeta(), oomph::TetMeshBase::setup_boundary_coordinates(), oomph::UnstructuredTwoDMeshGeometryBase::setup_boundary_coordinates(), oomph::RefineableTetgenMesh< ELEMENT >::snap_nodes_onto_boundary(), oomph::RefineableTriangleMesh< ELEMENT >::snap_nodes_onto_boundary(), oomph::TetMeshBase::snap_to_quadratic_surface(), oomph::TetMeshBase::split_elements_in_corners(), oomph::ThinLayerBrickOnTetMesh< ELEMENT >::ThinLayerBrickOnTetMesh(), and oomph::FpPressureAdvectionDiffusionProblem< ELEMENT >::validate().
◆ boundary_node_pt() [1/2]
|
inline |
Return pointer to node n on boundary b.
Definition at line 493 of file mesh.h.
References Boundary_node_pt.
Referenced by oomph::RefineableGmshTetMesh< ELEMENT >::adapt(), oomph::RefineableTetgenMesh< ELEMENT >::adapt(), oomph::RefineableTriangleMesh< ELEMENT >::adapt(), oomph::SolidMesh::boundary_node_pt(), oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::BrethertonSpineMesh(), build_face_mesh(), oomph::ExtrudedCubeMeshFromQuadMesh< ELEMENT >::build_mesh(), oomph::TwoDimensionalPMLHelper::create_bottom_left_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_bottom_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_bottom_right_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_left_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_right_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_top_left_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_top_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_top_right_pml_mesh(), oomph::TriangleMeshBase::dump_triangulateio(), merge_meshes(), oomph::PeriodicOrbitTemporalMesh< ELEMENT >::PeriodicOrbitTemporalMesh(), oomph::PMLCornerQuadMesh< ELEMENT >::PMLCornerQuadMesh(), oomph::PMLQuadMesh< ELEMENT >::PMLQuadMesh(), oomph::QuarterPipeMesh< ELEMENT >::QuarterPipeMesh(), oomph::RefineableQuadMeshWithMovingCylinder< ELEMENT >::RefineableQuadMeshWithMovingCylinder(), oomph::TriangleMeshBase::remesh_from_triangulateio(), remove_boundary_nodes(), oomph::TetMeshBase::setup_boundary_coordinates(), oomph::RefineableTetgenMesh< ELEMENT >::snap_nodes_onto_boundary(), oomph::RefineableTriangleMesh< ELEMENT >::snap_nodes_onto_boundary(), oomph::TetMeshBase::snap_nodes_onto_geometric_objects(), oomph::UnstructuredTwoDMeshGeometryBase::snap_nodes_onto_geometric_objects(), and oomph::ThinLayerBrickOnTetMesh< ELEMENT >::ThinLayerBrickOnTetMesh().
◆ boundary_node_pt() [2/2]
|
inline |
Return pointer to node n on boundary b.
Definition at line 499 of file mesh.h.
References Boundary_node_pt.
◆ build_face_mesh()
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inline |
Constuct a Mesh of FACE_ELEMENTs along the b-th boundary of the mesh (which contains elements of type BULK_ELEMENT)
Definition at line 653 of file mesh.h.
References add_element_pt(), add_node_pt(), boundary_element_pt(), boundary_node_pt(), communicator_pt(), e, face_index_at_boundary(), is_mesh_distributed(), nboundary_element(), nboundary_node(), and set_communicator_pt().
◆ calculate_predictions()
| void oomph::Mesh::calculate_predictions | ( | ) |
Calculate predictions for all Data and positions associated with the mesh, usually used in adaptive time-stepping.
Calculate predictions for all Data and positions associated with the mesh. This is usually only used for adaptive time-stepping when the comparison between a predicted value and the actual value is usually used to determine the change in step size. Again the loop is over all data in the mesh and individual timestepper functions for each data value are called.
Definition at line 2366 of file mesh.cc.
References e, element_pt(), nelement(), nnode(), and Node_pt.
Referenced by oomph::Problem::calculate_predictions().
◆ check_for_repeated_nodes()
|
inline |
Check for repeated nodes within a given spatial tolerance. Return (0/1) for (pass/fail).
Definition at line 752 of file mesh.h.
References i, oomph::Data::is_a_copy(), oomph::Node::ndim(), nnode(), node_pt(), oomph::oomph_info, and oomph::Node::x().
Referenced by self_test().
◆ check_halo_schemes()
| void oomph::Mesh::check_halo_schemes | ( | DocInfo & | doc_info, |
| double & | max_permitted_error_for_halo_check | ||
| ) |
Check halo and shared schemes on the mesh.
Check the halo/haloed/shared node/element schemes on the Mesh.
Definition at line 6881 of file mesh.cc.
References Comm_pt, oomph::DocInfo::directory(), e, element_pt(), External_halo_element_pt, External_haloed_element_pt, finite_element_pt(), halo_element_pt(), halo_node_pt(), haloed_element_pt(), haloed_node_pt(), oomph::Node::hanging_pt(), i, oomph::DocInfo::is_doc_enabled(), oomph::Node::is_hanging(), oomph::Tree::is_leaf(), oomph::DocInfo::label(), oomph::HangInfo::master_node_pt(), oomph::Node::ndim(), nelement(), nhalo_node(), nhaloed_node(), oomph::HangInfo::nmaster(), oomph::FiniteElement::nnode(), oomph::FiniteElement::node_pt(), nshared_node(), oomph::DocInfo::number(), oomph::Data::nvalue(), oomph::oomph_info, output_external_halo_elements(), output_external_haloed_elements(), oomph::Node::position(), Shared_node_pt, shared_node_pt(), oomph::RefineableElement::tree_pt(), and oomph::Node::x().
Referenced by oomph::Problem::check_halo_schemes().
◆ check_inverted_elements() [1/2]
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inline |
Check for inverted elements and report outcome in boolean variable. This visits all elements at their integration points and checks if the Jacobian of the mapping between local and global coordinates is positive – using the same test that would be carried out (but only in PARANOID mode) during the assembly of the elements' Jacobian matrices.
Definition at line 742 of file mesh.h.
References check_inverted_elements().
◆ check_inverted_elements() [2/2]
| void oomph::Mesh::check_inverted_elements | ( | bool & | mesh_has_inverted_elements, |
| std::ofstream & | inverted_element_file | ||
| ) |
Check for inverted elements and report outcome in boolean variable. This visits all elements at their integration points and checks if the Jacobian of the mapping between local and global coordinates is positive – using the same test that would be carried out (but only in PARANOID mode) during the assembly of the elements' Jacobian matrices. Inverted elements are output in inverted_element_file (if the stream is open).
Definition at line 870 of file mesh.cc.
References oomph::FiniteElement::check_jacobian(), oomph::FiniteElement::dim(), oomph::FiniteElement::dshape_eulerian(), e, finite_element_pt(), i, oomph::FiniteElement::integral_pt(), oomph::Integral::knot(), nelement(), oomph::FiniteElement::nnode(), oomph::FiniteElement::nodal_dimension(), oomph::Integral::nweight(), oomph::FiniteElement::output(), s, and oomph::FiniteElement::Suppress_output_while_checking_for_inverted_elements.
Referenced by check_inverted_elements(), and oomph::NonLinearElasticitySmoothMesh< ELEMENT >::doc_solution().
◆ classify_halo_and_haloed_nodes() [1/2]
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inlinevirtual |
Classify the halo and haloed nodes in the mesh. Virtual so it can be overloaded to perform additional functionality (such as synchronising hanging nodes) in refineable meshes, say.
Reimplemented in oomph::TreeBasedRefineableMeshBase.
Definition at line 1712 of file mesh.h.
References classify_halo_and_haloed_nodes(), and oomph::DocInfo::disable_doc().
◆ classify_halo_and_haloed_nodes() [2/2]
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virtual |
Classify the halo and haloed nodes in the mesh. Virtual so it can be overloaded to perform additional functionality (such as synchronising hanging nodes) in refineable meshes, say.
Classify all halo and haloed information in the mesh.
Reimplemented in oomph::TreeBasedRefineableMeshBase.
Definition at line 3262 of file mesh.cc.
References add_halo_node_pt(), add_haloed_node_pt(), add_shared_node_pt(), Comm_pt, oomph::Global_timings::Doc_comprehensive_timings, e, element_pt(), halo_element_pt(), Halo_node_pt, haloed_element_pt(), Haloed_node_pt, oomph::GeneralisedElement::internal_data_pt(), oomph::GeneralisedElement::is_halo(), oomph::Data::is_halo(), nelement(), nhalo_node(), nhaloed_node(), oomph::GeneralisedElement::ninternal_data(), oomph::FiniteElement::nnode(), nnode(), oomph::FiniteElement::node_pt(), node_pt(), nshared_node(), oomph::oomph_info, resize_halo_nodes(), Resize_halo_nodes_not_required, Root_halo_element_pt, Root_haloed_element_pt, oomph::Data::set_halo(), oomph::Data::set_nonhalo(), setup_shared_node_scheme(), shared_node_pt(), oomph::OomphInfo::stream_pt(), synchronise_shared_nodes(), oomph::TimingHelpers::timer(), and oomph::SolidNode::variable_position_pt().
Referenced by classify_halo_and_haloed_nodes(), oomph::TreeBasedRefineableMeshBase::classify_halo_and_haloed_nodes(), distribute(), and prune_halo_elements_and_nodes().
◆ communicator_pt()
|
inline |
Read-only access fct to communicator (Null if mesh is not distributed, i.e. if we don't have mpi).
Definition at line 1600 of file mesh.h.
References Comm_pt.
Referenced by build_face_mesh(), oomph::MeshAsGeomObject::build_it(), oomph::Z2ErrorEstimator::doc_flux(), oomph::Z2ErrorEstimator::get_element_errors(), oomph::Missing_masters_functions::get_required_master_nodal_information_helper(), is_mesh_distributed(), and oomph::TriangleMesh< ELEMENT >::shared_boundaries_in_this_processor().
◆ compute_error() [1/8]
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inlinevirtual |
Plot error when compared against a given time-dependent exact solution. Also returns the norm of the error and that of the exact solution.
Definition at line 1231 of file mesh.h.
References oomph::FiniteElement::compute_error(), e, Element_pt, and oomph::GeneralisedElement::is_halo().
◆ compute_error() [2/8]
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inlinevirtual |
Plot error when compared against a given time-dependent exact solution. Also returns the norm of the error and that of the exact solution.
Definition at line 1279 of file mesh.h.
References oomph::FiniteElement::compute_error(), e, Element_pt, i, oomph::Vector< _Tp >::initialise(), and oomph::GeneralisedElement::is_halo().
◆ compute_error() [3/8]
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inlinevirtual |
Returns the norm of the error and that of the exact solution.
Definition at line 1479 of file mesh.h.
References oomph::FiniteElement::compute_error(), e, Element_pt, and oomph::GeneralisedElement::is_halo().
◆ compute_error() [4/8]
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inlinevirtual |
Returns the norm of the error and that of the exact solution. Version with vectors of norms and errors so that different variables' norms and errors can be returned individually.
Definition at line 1525 of file mesh.h.
References oomph::FiniteElement::compute_error(), e, Element_pt, i, and oomph::GeneralisedElement::is_halo().
◆ compute_error() [5/8]
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inlinevirtual |
Plot error when compared against a given time-depdendent exact solution. Also returns the norm of the error and that of the exact solution.
Definition at line 1186 of file mesh.h.
References oomph::FiniteElement::compute_error(), e, Element_pt, and oomph::GeneralisedElement::is_halo().
◆ compute_error() [6/8]
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inlinevirtual |
Plot error when compared against a given time-depdendent exact solution. Also returns the norm of the error and that of the exact solution. Version with vectors of norms and errors so that different variables' norms and errors can be returned individually.
Definition at line 1417 of file mesh.h.
References oomph::FiniteElement::compute_error(), e, Element_pt, i, and oomph::GeneralisedElement::is_halo().
◆ compute_error() [7/8]
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inlinevirtual |
Plot error when compared against a given exact solution. Also returns the norm of the error and that of the exact solution.
Definition at line 1140 of file mesh.h.
References oomph::FiniteElement::compute_error(), e, Element_pt, and oomph::GeneralisedElement::is_halo().
◆ compute_error() [8/8]
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inlinevirtual |
Plot error when compared against a given time-depdendent exact solution. Also returns the norm of the error and that of the exact solution. Version with vectors of norms and errors so that different variables' norms and errors can be returned individually.
Definition at line 1351 of file mesh.h.
References oomph::FiniteElement::compute_error(), e, Element_pt, i, and oomph::GeneralisedElement::is_halo().
◆ compute_norm() [1/2]
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inlinevirtual |
Compute norm of solution by summing contributions of compute_norm(...) for all constituent elements in the mesh. What that norm means depends on what's defined in the element's function; may need to take the square root afterwards if the elements compute the square of the L2 norm, say.
Definition at line 1068 of file mesh.h.
References oomph::GeneralisedElement::compute_norm(), e, Element_pt, and oomph::GeneralisedElement::is_halo().
◆ compute_norm() [2/2]
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inlinevirtual |
Compute norm of solution by summing contributions of compute_norm(...) for all constituent elements in the mesh. What that norm means depends on what's defined in the element's function; may need to take the square root afterwards if the elements compute the square of the L2 norm, say.
Definition at line 1099 of file mesh.h.
References oomph::GeneralisedElement::compute_norm(), e, Element_pt, i, oomph::Vector< _Tp >::initialise(), and oomph::GeneralisedElement::is_halo().
◆ convert_to_boundary_node() [1/2]
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protected |
A function that upgrades an ordinary node to a boundary node. All pointers to the node from the mesh's elements are found. and replaced by pointers to the new boundary node. If the node is present in the mesh's list of nodes, that pointer is also replaced. Finally, the pointer argument node_pt addresses the new node on return from the function. We shouldn't ever really use this, but it does make life that bit easier for the lazy mesh writer.
Definition at line 2564 of file mesh.cc.
References convert_to_boundary_node(), e, Element_pt, finite_element_pt(), nelement(), and node_pt().
◆ convert_to_boundary_node() [2/2]
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protected |
A function that upgrades an ordinary node to a boundary node We shouldn't ever really use this, but it does make life that bit easier for the lazy mesh writer. The pointer to the node is replaced by a pointer to the new boundary node in all element look-up schemes and in the mesh's Node_pt vector. The new node is also addressed by node_pt on return from the function.
As convert_to_boundary_node but with a vector of pre-"dynamic cast"ed pointers passed in. If this function is being called often then creating this vector and passing it in explicitly each time can give a large speed up.
Definition at line 2590 of file mesh.cc.
References oomph::FiniteElement::construct_boundary_node(), oomph::Node::copy(), oomph::SolidNode::copy(), e, Element_pt, finite_element_pt(), oomph::FiniteElement::get_node_number(), nelement(), oomph::FiniteElement::node_pt(), Node_pt, node_pt(), and oomph::Data::time_stepper_pt().
Referenced by oomph::ChannelWithLeafletMesh< ELEMENT >::ChannelWithLeafletMesh(), convert_to_boundary_node(), oomph::FullCircleMesh< ELEMENT >::FullCircleMesh(), oomph::QuarterTubeMesh< ELEMENT >::QuarterTubeMesh(), oomph::RectangleWithHoleMesh< ELEMENT >::RectangleWithHoleMesh(), oomph::SimpleRectangularTriMesh< ELEMENT >::SimpleRectangularTriMesh(), and oomph::TubeMesh< ELEMENT >::TubeMesh().
◆ copy_boundary_node_data_from_nodes()
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inline |
Replace existing boundary node lookup schemes with new schemes created using the boundary data stored in the nodes.
Definition at line 526 of file mesh.h.
References Boundary_node_pt, oomph::Node::get_boundaries_pt(), oomph::Node::is_on_boundary(), nboundary(), nnode(), node_pt(), and set_nboundary().
◆ create_shared_boundaries()
|
inlinevirtual |
Creates the shared boundaries, only used in unstructured meshes In this case with the "TriangleMesh" class.
Reimplemented in oomph::TriangleMesh< ELEMENT >.
Definition at line 2490 of file mesh.h.
Referenced by distribute().
◆ delete_all_external_storage()
| void oomph::Mesh::delete_all_external_storage | ( | ) |
Wipe the storage for all externally-based elements.
Wipe the storage for all externally-based elements and delete halos.
/Now store geometrically hanging nodes on boundaries that /may need updating after refinement. /There will only be a problem if we have 3 spatial dimensions
Definition at line 9190 of file mesh.cc.
References Comm_pt, e, External_halo_element_pt, External_halo_node_pt, external_halo_node_pt(), External_haloed_element_pt, External_haloed_node_pt, oomph::Node::hanging_pt(), i, oomph::Node::is_hanging(), is_mesh_distributed(), oomph::SolidNode::lagrangian_position(), oomph::HangInfo::master_node_pt(), nboundary(), oomph::Node::ndim(), nexternal_halo_element(), nexternal_halo_node(), oomph::SolidNode::nlagrangian(), oomph::HangInfo::nmaster(), nnode(), Node_pt, node_pt(), oomph::AlgebraicNode::node_update(), oomph::Data::ntstorage(), oomph::Data::nvalue(), oomph::Node::position(), remove_boundary_node(), oomph::Node::set_nonhanging(), oomph::Data::set_value(), t, oomph::Node::value(), oomph::Node::x(), and oomph::SolidNode::xi().
Referenced by oomph::TreeBasedRefineableMeshBase::adapt(), oomph::TreeBasedRefineableMeshBase::adapt_mesh(), oomph::Problem::delete_all_external_storage(), distribute(), oomph::TreeBasedRefineableMeshBase::p_adapt(), oomph::TreeBasedRefineableMeshBase::p_adapt_mesh(), prune_halo_elements_and_nodes(), oomph::Multi_domain_functions::setup_multi_domain_interactions(), and ~Mesh().
◆ describe_dofs()
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protected |
Function to describe the dofs of the Mesh. The ostream specifies the output stream to which the description is written; the string stores the currently assembled output that is ultimately written to the output stream by Data::describe_dofs(...); it is typically built up incrementally as we descend through the call hierarchy of this function when called from Problem::describe_dofs(...)
Definition at line 711 of file mesh.cc.
References Element_pt, i, Node_pt, and oomph::Global_string_for_annotation::string().
Referenced by oomph::Problem::describe_dofs().
◆ describe_local_dofs()
|
protected |
Function to describe the local dofs of the elements. The ostream specifies the output stream to which the description is written; the string stores the currently assembled output that is ultimately written to the output stream by Data::describe_dofs(...); it is typically built up incrementally as we descend through the call hierarchy of this function when called from Problem::describe_dofs(...)
Definition at line 746 of file mesh.cc.
References Element_pt, i, and oomph::Global_string_for_annotation::string().
Referenced by oomph::Problem::describe_dofs().
◆ disable_output_of_halo_elements()
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inline |
Function to disable halo element output.
Definition at line 2046 of file mesh.h.
References Output_halo_elements.
◆ disable_resizing_of_halo_nodes()
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inline |
Function to suppress resizing of halo nodes – optmisation but call it at your own risk!
Definition at line 2032 of file mesh.h.
References Resize_halo_nodes_not_required.
◆ distribute() [1/2]
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inline |
Distribute the problem Add to vector of pointers to deleted elements.
Definition at line 1645 of file mesh.h.
References oomph::DocInfo::disable_doc(), and distribute().
◆ distribute() [2/2]
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virtual |
Distribute the problem and doc; make this virtual to allow overloading for particular meshes where further work is required. Add to vector of pointers to deleted elements.
Distribute the mesh. Add to vector of deleted elements.
Reimplemented in oomph::MacroElementNodeUpdateMesh.
Definition at line 4959 of file mesh.cc.
References add_element_pt(), add_root_halo_element_pt(), add_root_haloed_element_pt(), classify_halo_and_haloed_nodes(), Comm_pt, create_shared_boundaries(), delete_all_external_storage(), oomph::DocInfo::directory(), doc_mesh_distribution(), e, element_pt(), finite_element_pt(), flush_element_storage(), oomph::Tree::flush_object(), i, oomph::DocInfo::is_doc_enabled(), oomph::GeneralisedElement::is_halo(), Keep_all_elements_as_halos, oomph::GeneralisedElement::must_be_kept_as_halo(), nboundary(), nboundary_element(), oomph::UnstructuredTwoDMeshGeometryBase::nboundary_element_in_region(), oomph::Node::ndim(), nelement(), oomph::FiniteElement::nnode(), nnode(), oomph::FiniteElement::node_pt(), node_pt(), oomph::UnstructuredTwoDMeshGeometryBase::nregion(), nroot_halo_element(), nroot_haloed_element(), oomph::DocInfo::number(), oomph::oomph_info, oomph::FiniteElement::output(), prune_dead_nodes(), oomph::UnstructuredTwoDMeshGeometryBase::region_attribute(), oomph::TriangleMeshBase::reset_boundary_element_info(), oomph::Node::set_non_obsolete(), oomph::Node::set_obsolete(), setup_boundary_element_info(), oomph::TreeBasedRefineableMeshBase::setup_tree_forest(), oomph::RefineableElement::tree_pt(), and oomph::Node::x().
Referenced by oomph::Problem::distribute(), distribute(), oomph::MacroElementNodeUpdateMesh::distribute(), and oomph::Problem::load_balance().
◆ doc_boundary_coordinates()
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inline |
Output boundary coordinates on boundary b – template argument specifies the bulk element type (needed to create FaceElement of appropriate type on mesh boundary).
Definition at line 303 of file mesh.h.
References Boundary_coordinate_exists, boundary_element_pt(), e, face_index_at_boundary(), finite_element_pt(), oomph::FiniteElement::get_s_plot(), i, oomph::FaceElement::interpolated_x(), oomph::FiniteElement::interpolated_zeta(), nboundary_element(), oomph::Node::ndim(), nelement(), oomph::FiniteElement::node_pt(), oomph::FiniteElement::nplot_points(), oomph::oomph_info, s, oomph::FaceElement::set_boundary_number_in_bulk_mesh(), oomph::FiniteElement::tecplot_zone_string(), and oomph::FiniteElement::write_tecplot_zone_footer().
◆ doc_mesh_distribution()
| void oomph::Mesh::doc_mesh_distribution | ( | DocInfo & | doc_info | ) |
Doc the mesh distribution, to be processed with tecplot macros.
Doc the mesh distribution.
Definition at line 6470 of file mesh.cc.
References boundary_element_pt(), Comm_pt, oomph::DocInfo::directory(), e, element_pt(), halo_element_pt(), halo_node_pt(), haloed_element_pt(), haloed_node_pt(), oomph::Node::hang_code(), i, oomph::GeneralisedElement::is_halo(), oomph::Data::is_halo(), oomph::Tree::is_leaf(), oomph::DocInfo::label(), Lookup_for_elements_next_boundary_is_setup, nboundary(), nboundary_element(), oomph::Node::ndim(), nelement(), nhalo_node(), nhaloed_node(), oomph::FiniteElement::nnode(), nnode(), oomph::FiniteElement::node_pt(), node_pt(), oomph::Data::non_halo_proc_ID(), nshared_node(), oomph::DocInfo::number(), oomph::Data::nvalue(), oomph::FiniteElement::output(), output(), output_boundaries(), shared_node_pt(), oomph::RefineableElement::tree_pt(), and oomph::Node::x().
Referenced by distribute(), and prune_halo_elements_and_nodes().
◆ doc_shared_nodes()
|
inline |
Doc shared nodes.
Definition at line 2072 of file mesh.h.
References i, oomph::Node::is_hanging(), oomph::Node::ndim(), oomph::oomph_info, Shared_node_pt, and oomph::Node::x().
◆ does_pointer_correspond_to_mesh_data()
| bool oomph::Mesh::does_pointer_correspond_to_mesh_data | ( | double *const & | parameter_pt | ) |
Does the double pointer correspond to any mesh data.
Return true if the pointer corresponds to any data stored in the mesh and false if not.
Definition at line 2471 of file mesh.cc.
References oomph::Data::does_pointer_correspond_to_value(), e, element_pt(), oomph::GeneralisedElement::internal_data_pt(), nelement(), oomph::GeneralisedElement::ninternal_data(), nnode(), and Node_pt.
Referenced by oomph::Problem::does_pointer_correspond_to_problem_data().
◆ dump() [1/2]
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inline |
Dump the data in the mesh into a file for restart.
Definition at line 915 of file mesh.h.
References dump(), and oomph::Global_string_for_annotation::string().
◆ dump() [2/2]
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virtual |
Dump the data in the mesh into a file for restart.
Dump function for the mesh class. Loop over all nodes and elements and dump them.
Definition at line 1088 of file mesh.cc.
References oomph::Data::dump(), e, element_pt(), get_node_reordering(), i, oomph::GeneralisedElement::internal_data_pt(), nelement(), oomph::GeneralisedElement::ninternal_data(), and nnode().
Referenced by dump(), oomph::Problem::dump(), and oomph::SpineMesh::dump().
◆ element_pt() [1/4]
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inline |
Return reference to the Vector of elements.
Definition at line 466 of file mesh.h.
References Element_pt.
◆ element_pt() [2/4]
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inline |
Return reference to the Vector of elements.
Definition at line 460 of file mesh.h.
References Element_pt.
Referenced by oomph::TreeBasedRefineableMeshBase::adapt(), add_element_pt(), oomph::PeriodicOrbitTemporalMesh< ELEMENT >::assemble_residuals(), oomph::PeriodicOrbitTemporalMesh< ELEMENT >::assemble_residuals_and_jacobian(), assign_initial_values_impulsive(), oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::BrethertonSpineMesh(), calculate_predictions(), check_halo_schemes(), classify_halo_and_haloed_nodes(), oomph::TreeBasedRefineableMeshBase::classify_halo_and_haloed_nodes(), distribute(), doc_mesh_distribution(), does_pointer_correspond_to_mesh_data(), dump(), oomph::ElasticRefineableQuarterPipeMesh< ELEMENT >::ElasticRefineableQuarterPipeMesh(), get_node_reordering(), oomph::TreeBasedRefineableMeshBase::get_refinement_levels(), oomph::DGMesh::limit_slopes(), oomph::MacroElementNodeUpdateChannelWithLeafletMesh< ELEMENT >::MacroElementNodeUpdateChannelWithLeafletMesh(), oomph::MacroElementNodeUpdateCollapsibleChannelMesh< ELEMENT >::MacroElementNodeUpdateCollapsibleChannelMesh(), oomph::MacroElementNodeUpdateRefineableFishMesh< ELEMENT >::MacroElementNodeUpdateRefineableFishMesh(), ndof_types(), nnon_halo_element(), node_update(), oomph::PeriodicOrbitTemporalMesh< ELEMENT >::orbit_output(), output_fct_paraview(), output_paraview(), oomph::TreeBasedRefineableMeshBase::p_adapt(), oomph::TreeBasedRefineableMeshBase::p_adapt_mesh(), oomph::TreeBasedRefineableMeshBase::p_refine_selected_elements(), oomph::TreeBasedRefineableMeshBase::p_refine_uniformly(), oomph::TreeBasedRefineableMeshBase::p_unrefine_uniformly(), oomph::PMLQuadMeshBase< ELEMENT >::pml_locate_zeta(), oomph::PMLCornerQuadMesh< ELEMENT >::PMLCornerQuadMesh(), oomph::PMLQuadMesh< ELEMENT >::PMLQuadMesh(), oomph::QuarterCircleSectorMesh< ELEMENT >::QuarterCircleSectorMesh(), oomph::QuarterPipeMesh< ELEMENT >::QuarterPipeMesh(), read(), oomph::TreeBasedRefineableMeshBase::refine_base_mesh(), oomph::TreeBasedRefineableMeshBase::refine_selected_elements(), oomph::TreeBasedRefineableMeshBase::refine_uniformly(), oomph::RefineableEighthSphereMesh< ELEMENT >::RefineableEighthSphereMesh(), oomph::RefineableFullCircleMesh< ELEMENT >::RefineableFullCircleMesh(), oomph::RefineableQuarterTubeMesh< ELEMENT >::RefineableQuarterTubeMesh(), oomph::RefineableRectangleWithHoleAndAnnularRegionMesh< ELEMENT >::RefineableRectangleWithHoleAndAnnularRegionMesh(), oomph::RefineableRectangleWithHoleMesh< ELEMENT >::RefineableRectangleWithHoleMesh(), oomph::RefineableTubeMesh< ELEMENT >::RefineableTubeMesh(), oomph::RefineableTwoDAnnularMesh< ELEMENT >::RefineableTwoDAnnularMesh(), set_consistent_pinned_values_for_continuation(), set_elemental_internal_time_stepper(), oomph::AlgebraicFishMesh< ELEMENT >::setup_algebraic_node_update(), oomph::AlgebraicRefineableQuarterCircleSectorMesh< ELEMENT >::setup_algebraic_node_update(), oomph::AlgebraicRefineableQuarterTubeMesh< ELEMENT >::setup_algebraic_node_update(), oomph::RefineableLineMesh< ELEMENT >::setup_binary_tree_forest(), oomph::DGMesh::setup_face_neighbour_info(), oomph::MacroElementNodeUpdateRefineableQuarterCircleSectorMesh< ELEMENT >::setup_macro_element_node_update(), oomph::MacroElementNodeUpdateRefineableQuarterTubeMesh< ELEMENT >::setup_macro_element_node_update(), oomph::RefineableBrickMesh< ELEMENT >::setup_octree_forest(), oomph::RefineableQuadMesh< ELEMENT >::setup_quadtree_forest(), and shift_time_values().
◆ element_pt() [3/4]
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Return pointer to element e.
Definition at line 448 of file mesh.h.
References e, and Element_pt.
Referenced by oomph::IMRByBDF::actions_after_timestep(), oomph::RefineableGmshTetMesh< ELEMENT >::adapt(), oomph::RefineableTetgenMesh< ELEMENT >::adapt(), oomph::RefineableTriangleMesh< ELEMENT >::adapt(), oomph::PeriodicOrbitAssemblyHandler< NNODE_1D >::adapt_temporal_mesh(), oomph::NavierStokesSchurComplementPreconditioner::assemble_inv_press_and_veloc_mass_matrix_diagonal(), oomph::PressureBasedSolidLSCPreconditioner::assemble_mass_matrix_diagonal(), oomph::Problem::assign_eqn_numbers(), oomph::Multi_domain_functions::aux_setup_multi_domain_interaction(), oomph::SolidICProblem::backup_original_state(), oomph::BackupMeshForProjection< GEOMETRIC_ELEMENT >::BackupMeshForProjection(), oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::BrethertonSpineMesh(), oomph::MeshAsGeomObject::build_it(), oomph::Problem::copy(), oomph::TwoDimensionalPMLHelper::create_bottom_left_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_bottom_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_bottom_right_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_left_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_right_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_top_left_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_top_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_top_right_pml_mesh(), oomph::RefineableTriangleMesh< ELEMENT >::create_unsorted_face_mesh_representation(), oomph::Problem::disable_mass_matrix_reuse(), oomph::Problem::distribute(), oomph::SolidHelpers::doc_2D_principal_stress(), oomph::Z2ErrorEstimator::doc_flux(), oomph::FSI_functions::doc_fsi(), oomph::Problem::enable_mass_matrix_reuse(), oomph::NetFluxControlElement::fill_in_generic_residual_contribution_flux_control(), oomph::FoldHandler::FoldHandler(), oomph::Problem::get_data_to_be_sent_during_load_balancing(), oomph::Multi_domain_functions::get_dim_helper(), oomph::Problem::get_dofs(), oomph::Z2ErrorEstimator::get_element_errors(), oomph::Problem::get_flat_packed_refinement_pattern_for_load_balancing(), oomph::ImmersedRigidBodyElement::get_force_and_torque(), oomph::Problem::get_hessian_vector_products(), oomph::Problem::get_inverse_mass_matrix_times_residuals(), oomph::Problem::get_jacobian(), oomph::Problem::get_my_eqns(), oomph::NavierStokesSchurComplementPreconditioner::get_pressure_advection_diffusion_matrix(), oomph::Problem::get_residuals(), oomph::HopfHandler::HopfHandler(), oomph::ImposeFluxForWomersleyElement< DIM >::ImposeFluxForWomersleyElement(), oomph::Problem::load_balance(), oomph::HelmholtzMGPreconditioner< DIM >::maximum_edge_width(), oomph::NetFluxControlElement::NetFluxControlElement(), oomph::ImmersedRigidBodyElement::node_update_adjacent_fluid_elements(), oomph::NonLinearElasticitySmoothMesh< ELEMENT >::operator()(), oomph::PeriodicOrbitAssemblyHandler< NNODE_1D >::orbit_output(), oomph::Problem::parallel_sparse_assemble(), oomph::METIS::partition_distributed_mesh(), oomph::METIS::partition_mesh(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::pin_all(), oomph::NavierStokesSchurComplementPreconditioner::pin_all_non_pressure_dofs(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::pin_dofs_of_field(), oomph::PitchForkHandler::PitchForkHandler(), oomph::WomersleyImpedanceTubeBase< ELEMENT, DIM >::precompute_aux_integrals(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::project(), oomph::Problem::prune_halo_elements_and_nodes(), oomph::Problem::read(), oomph::VorticitySmoother< ELEMENT >::recover_vorticity(), oomph::Problem::remove_duplicate_data(), oomph::HSL_MA42::reorder_elements(), oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::reposition_spines(), oomph::SolidICProblem::reset_original_state(), oomph::NavierStokesSchurComplementPreconditioner::reset_pin_status(), oomph::AugmentedBlockFoldLinearSolver::resolve(), oomph::AugmentedBlockPitchForkLinearSolver::resolve(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::restore_positions(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::set_coordinate_for_projection(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::set_current_field_for_projection(), oomph::Problem::set_dofs(), oomph::ImmersedRigidBodyElement::set_drag_mesh(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::set_lagrangian_coordinate_for_projection(), oomph::SolidICProblem::set_newmark_initial_condition_consistently(), oomph::Problem::set_pinned_values_to_zero(), oomph::BiharmonicProblem< DIM >::set_source_function(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::set_time_level_for_projection(), oomph::Problem::setup_element_count_per_dof(), oomph::VorticitySmoother< ELEMENT >::setup_patches(), oomph::Z2ErrorEstimator::setup_patches(), oomph::SolidICProblem::setup_problem(), oomph::RefineableTetgenMesh< ELEMENT >::snap_nodes_onto_boundary(), oomph::AugmentedBlockFoldLinearSolver::solve(), oomph::AugmentedBlockPitchForkLinearSolver::solve(), oomph::BlockHopfLinearSolver::solve(), oomph::HSL_MA42::solve(), oomph::HSL_MA42::solve_for_one_dof(), oomph::BlockHopfLinearSolver::solve_for_two_rhs(), oomph::Problem::sparse_assemble_row_or_column_compressed_with_lists(), oomph::Problem::sparse_assemble_row_or_column_compressed_with_maps(), oomph::Problem::sparse_assemble_row_or_column_compressed_with_two_arrays(), oomph::Problem::sparse_assemble_row_or_column_compressed_with_two_vectors(), oomph::Problem::sparse_assemble_row_or_column_compressed_with_vectors_of_pairs(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::store_positions(), oomph::Problem::synchronise_eqn_numbers(), oomph::ThinLayerBrickOnTetMesh< ELEMENT >::ThinLayerBrickOnTetMesh(), oomph::ImposeFluxForWomersleyElement< DIM >::total_volume_flux(), oomph::NavierStokesImpedanceTractionElement< BULK_NAVIER_STOKES_ELEMENT, WOMERSLEY_ELEMENT, DIM >::total_volume_flux_into_downstream_tube(), oomph::WomersleyImpedanceTubeBase< ELEMENT, DIM >::total_volume_flux_into_impedance_tube(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::unpin_all(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::unpin_dofs_of_field(), oomph::RefineableTetgenMesh< ELEMENT >::update_faceted_surface_using_face_mesh(), oomph::FpPressureAdvectionDiffusionProblem< ELEMENT >::validate(), oomph::WomersleyImpedanceTubeBase< ELEMENT, DIM >::WomersleyImpedanceTubeBase(), and oomph::WomersleyProblem< ELEMENT, DIM >::WomersleyProblem().
◆ element_pt() [4/4]
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Return pointer to element e (const version)
Definition at line 454 of file mesh.h.
References e, and Element_pt.
◆ elemental_dimension()
| unsigned oomph::Mesh::elemental_dimension | ( | ) | const |
Return number of elemental dimension in mesh.
Get the number of elemental dimension in the mesh from the first element of the mesh. If MPI is on then also do some consistency checks between processors. Careful: Involves MPI Broadcasts and must therefore be called on all processors!
Definition at line 8917 of file mesh.cc.
References Comm_pt, oomph::FiniteElement::dim(), finite_element_pt(), i, and nelement().
Referenced by oomph::LagrangeEnforcedFlowPreconditioner::set_meshes().
◆ enable_output_of_halo_elements()
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inline |
Function to enable halo element output.
Definition at line 2052 of file mesh.h.
References Output_halo_elements.
◆ enable_resizing_of_halo_nodes()
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inline |
Function to (re-)enable resizing of halo nodes – this returns things to the default behaviour.
Definition at line 2040 of file mesh.h.
References Resize_halo_nodes_not_required.
◆ external_halo_element_pt()
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inline |
Access fct to the e-th external halo element in this Mesh whose non-halo counterpart is held on processor p.
Definition at line 2251 of file mesh.h.
References e, and External_halo_element_pt.
Referenced by oomph::Problem::assign_eqn_numbers(), oomph::Multi_domain_functions::construct_new_external_halo_master_node_helper(), oomph::Missing_masters_functions::construct_new_external_halo_master_node_helper(), oomph::Problem::copy_haloed_eqn_numbers_helper(), oomph::Multi_domain_functions::create_external_halo_elements(), oomph::FSI_functions::doc_fsi(), oomph::Problem::remove_duplicate_data(), and oomph::Problem::synchronise_dofs().
◆ external_halo_node_pt() [1/2]
Access fct to vector of external halo node in this Mesh whose non-halo external counterpart is held on processor p. (read only)
Definition at line 2384 of file mesh.h.
References External_halo_node_pt.
◆ external_halo_node_pt() [2/2]
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inline |
Access fct to the j-th external halo node in this Mesh whose non-halo external counterpart is held on processor p.
Definition at line 2377 of file mesh.h.
References External_halo_node_pt.
Referenced by oomph::Multi_domain_functions::add_external_halo_master_node_helper(), oomph::Missing_masters_functions::add_external_halo_master_node_helper(), oomph::Multi_domain_functions::add_external_halo_node_helper(), oomph::Missing_masters_functions::add_external_halo_node_helper(), oomph::Problem::copy_haloed_eqn_numbers_helper(), delete_all_external_storage(), get_external_halo_node_pt(), oomph::AlgebraicMesh::node_update(), oomph::MacroElementNodeUpdateMesh::node_update(), node_update(), oomph::Problem::remove_null_pointers_from_external_halo_node_storage(), resize_halo_nodes(), set_external_halo_node_pt(), and oomph::Problem::synchronise_dofs().
◆ external_halo_proc()
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inline |
Return the set of processors that hold external halo nodes. This is required to avoid having to pass a communicator into the node_update functions for Algebraic-based and MacroElement-based Meshes.
Definition at line 2475 of file mesh.h.
References External_halo_node_pt.
Referenced by oomph::FSI_functions::doc_fsi().
◆ external_haloed_element_pt()
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inline |
Access fct to the e-th external haloed element in this Mesh whose non-halo counterpart is held on processor p.
Definition at line 2296 of file mesh.h.
References e, and External_haloed_element_pt.
Referenced by oomph::Problem::copy_haloed_eqn_numbers_helper(), oomph::Missing_masters_functions::get_required_master_nodal_information_helper(), and oomph::Problem::synchronise_dofs().
◆ external_haloed_node_pt() [1/2]
Access fct to vector of external haloed node in this Mesh whose halo external counterpart is held on processor p. (read only)
Definition at line 2452 of file mesh.h.
References External_haloed_node_pt.
◆ external_haloed_node_pt() [2/2]
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Access fct to the j-th external haloed node in this Mesh whose halo external counterpart is held on processor p.
Definition at line 2441 of file mesh.h.
References External_haloed_node_pt.
Referenced by oomph::Problem::copy_haloed_eqn_numbers_helper(), oomph::Problem::remove_null_pointers_from_external_halo_node_storage(), resize_halo_nodes(), set_external_haloed_node_pt(), and oomph::Problem::synchronise_dofs().
◆ face_index_at_boundary()
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inline |
For the e-th finite element on boundary b, return int to indicate the face_index of the face adjacent to the boundary. This is consistent with input required during the generation of FaceElements.
Definition at line 896 of file mesh.h.
References e, Face_index_at_boundary, and Lookup_for_elements_next_boundary_is_setup.
Referenced by oomph::RefineableGmshTetMesh< ELEMENT >::adapt(), oomph::RefineableTetgenMesh< ELEMENT >::adapt(), oomph::RefineableTriangleMesh< ELEMENT >::adapt(), build_face_mesh(), doc_boundary_coordinates(), oomph::ExtrudedCubeMeshFromQuadMesh< ELEMENT >::get_element_boundary_information(), oomph::NavierStokesSchurComplementPreconditioner::get_pressure_advection_diffusion_matrix(), oomph::NonLinearElasticitySmoothMesh< ELEMENT >::operator()(), oomph::TetMeshBase::setup_boundary_coordinates(), oomph::UnstructuredTwoDMeshGeometryBase::setup_boundary_coordinates(), oomph::TetMeshBase::split_elements_in_corners(), oomph::ThinLayerBrickOnTetMesh< ELEMENT >::ThinLayerBrickOnTetMesh(), and oomph::FpPressureAdvectionDiffusionProblem< ELEMENT >::validate().
◆ finite_element_pt()
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Upcast (downcast?) to FiniteElement (needed to access FiniteElement member functions).
Definition at line 473 of file mesh.h.
References e, and Element_pt.
Referenced by oomph::RefineableTetgenMesh< ELEMENT >::adapt(), oomph::RefineableTriangleMesh< ELEMENT >::adapt(), oomph::TreeBasedRefineableMeshBase::adapt_mesh(), oomph::TetMeshBase::assess_mesh_quality(), oomph::Multi_domain_functions::aux_setup_multi_domain_interaction(), oomph::BackupMeshForProjection< GEOMETRIC_ELEMENT >::BackupMeshForProjection(), oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::BrethertonSpineMesh(), oomph::GmshTetMesh< ELEMENT >::build_from_scaffold(), oomph::QuadFromTriangleMesh< ELEMENT >::build_from_scaffold(), oomph::MeshAsGeomObject::build_it(), oomph::ExtrudedCubeMeshFromQuadMesh< ELEMENT >::build_mesh(), oomph::ChannelWithLeafletMesh< ELEMENT >::ChannelWithLeafletMesh(), check_halo_schemes(), check_inverted_elements(), oomph::TriangleScaffoldMesh::check_mesh_integrity(), oomph::CollapsibleChannelMesh< ELEMENT >::CollapsibleChannelMesh(), oomph::RefineableTetMeshBase::compute_volume_target(), oomph::Missing_masters_functions::construct_new_external_halo_master_node_helper(), oomph::Missing_masters_functions::construct_new_external_halo_node_helper(), convert_to_boundary_node(), oomph::GmshTetScaffoldMesh::create_mesh_from_msh_file(), oomph::RefineableTriangleMesh< ELEMENT >::create_sorted_face_mesh_representation(), distribute(), doc_boundary_coordinates(), oomph::Z2ErrorEstimator::doc_flux(), oomph::FSI_functions::doc_fsi(), oomph::FpPressureAdvectionDiffusionProblem< ELEMENT >::doc_solution(), oomph::DummyErrorEstimator::DummyErrorEstimator(), oomph::EighthSphereMesh< ELEMENT >::EighthSphereMesh(), oomph::ElasticRefineableQuarterPipeMesh< ELEMENT >::ElasticRefineableQuarterPipeMesh(), elemental_dimension(), oomph::FpPressureAdvectionDiffusionProblem< ELEMENT >::FpPressureAdvectionDiffusionProblem(), oomph::FSIDrivenCavityMesh< ELEMENT >::FSIDrivenCavityMesh(), oomph::FullCircleMesh< ELEMENT >::FullCircleMesh(), oomph::GeompackQuadScaffoldMesh::GeompackQuadScaffoldMesh(), oomph::DummyErrorEstimator::get_element_errors(), oomph::NavierStokesSchurComplementPreconditioner::get_pressure_advection_diffusion_matrix(), oomph::Problem::load_balance(), max_and_min_element_size(), oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::nfree_surface_spines(), nodal_dimension(), oomph::LinearElasticitySmoothMesh< LINEAR_ELASTICITY_ELEMENT >::operator()(), oomph::PoissonSmoothMesh< POISSON_ELEMENT >::operator()(), oomph::TreeBasedRefineableMeshBase::p_adapt_mesh(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::pin_all(), oomph::FpPressureAdvectionDiffusionProblem< ELEMENT >::pin_all_non_pressure_dofs(), oomph::MGSolver< DIM >::plot(), oomph::PMLQuadMeshBase< ELEMENT >::pml_locate_zeta(), oomph::PMLCornerQuadMesh< ELEMENT >::PMLCornerQuadMesh(), oomph::PMLQuadMesh< ELEMENT >::PMLQuadMesh(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::project(), prune_halo_elements_and_nodes(), oomph::QuarterCircleSectorMesh< ELEMENT >::QuarterCircleSectorMesh(), oomph::QuarterTubeMesh< ELEMENT >::QuarterTubeMesh(), oomph::RectangleWithHoleMesh< ELEMENT >::RectangleWithHoleMesh(), oomph::TreeBasedRefineableMeshBase::refine_as_in_reference_mesh(), oomph::Problem::refine_distributed_base_mesh(), oomph::RefineableEighthSphereMesh< ELEMENT >::RefineableEighthSphereMesh(), oomph::RefineableFullCircleMesh< ELEMENT >::RefineableFullCircleMesh(), oomph::RefineableQuarterPipeMesh< ELEMENT >::RefineableQuarterPipeMesh(), oomph::RefineableQuarterTubeMesh< ELEMENT >::RefineableQuarterTubeMesh(), oomph::RefineableTubeMesh< ELEMENT >::RefineableTubeMesh(), oomph::FpPressureAdvectionDiffusionProblem< ELEMENT >::reset_pin_status(), oomph::NavierStokesImpedanceTractionElement< BULK_NAVIER_STOKES_ELEMENT, WOMERSLEY_ELEMENT, DIM >::set_external_data_from_navier_stokes_outflow_mesh(), oomph::MGSolver< DIM >::set_self_test_vector(), oomph::NavierStokesSchurComplementPreconditioner::setup(), oomph::AlgebraicFishMesh< ELEMENT >::setup_algebraic_node_update(), oomph::AlgebraicRefineableQuarterCircleSectorMesh< ELEMENT >::setup_algebraic_node_update(), oomph::AlgebraicRefineableQuarterTubeMesh< ELEMENT >::setup_algebraic_node_update(), oomph::BrickMeshBase::setup_boundary_element_info(), oomph::LineMeshBase::setup_boundary_element_info(), oomph::QuadMeshBase::setup_boundary_element_info(), oomph::TetMeshBase::setup_boundary_element_info(), oomph::TriangleMeshBase::setup_boundary_element_info(), oomph::MGSolver< DIM >::setup_interpolation_matrices(), oomph::HelmholtzMGPreconditioner< DIM >::setup_interpolation_matrices(), oomph::SimpleRectangularTriMesh< ELEMENT >::SimpleRectangularTriMesh(), oomph::TetMeshBase::snap_nodes_onto_geometric_objects(), oomph::TetMeshBase::split_elements_in_corners(), oomph::TetgenScaffoldMesh::TetgenScaffoldMesh(), oomph::ThinLayerBrickOnTetMesh< ELEMENT >::ThinLayerBrickOnTetMesh(), total_size(), oomph::TriangleScaffoldMesh::TriangleScaffoldMesh(), oomph::TubeMesh< ELEMENT >::TubeMesh(), oomph::RefineableTetgenMesh< ELEMENT >::update_faceted_surface_using_face_mesh(), and oomph::WomersleyMesh< WOMERSLEY_ELEMENT >::WomersleyMesh().
◆ flush_element_and_node_storage()
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Flush storage for elements and nodes by emptying the vectors that store the pointers to them. This is useful if a particular mesh is only built to generate a small part of a bigger mesh. Once the elements and nodes have been created, they are typically copied into the new mesh and the auxiliary mesh can be deleted. However, if we simply call the destructor of the auxiliary mesh, it will also wipe out the nodes and elements, because it still "thinks" it's in charge of these...
Definition at line 407 of file mesh.h.
References flush_element_storage(), and flush_node_storage().
Referenced by oomph::RefineableGmshTetMesh< ELEMENT >::adapt(), oomph::RefineableTetgenMesh< ELEMENT >::adapt(), oomph::RefineableTriangleMesh< ELEMENT >::adapt(), oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::BrethertonSpineMesh(), oomph::Problem::load_balance(), prune_halo_elements_and_nodes(), oomph::TriangleMesh< ELEMENT >::remesh_from_internal_triangulateio(), oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::reposition_spines(), oomph::RefineableTetgenMesh< ELEMENT >::snap_nodes_onto_boundary(), and oomph::Problem::~Problem().
◆ flush_element_storage()
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inline |
Flush storage for elements (only) by emptying the vectors that store the pointers to them. This is useful if a particular mesh is only built to generate a small part of a bigger mesh. Once the elements and nodes have been created, they are typically copied into the new mesh and the auxiliary mesh can be deleted. However, if we simply call the destructor of the auxiliary mesh, it will also wipe out the nodes and elements, because it still "thinks" it's in charge of these...
Definition at line 423 of file mesh.h.
References Element_pt.
Referenced by distribute(), and flush_element_and_node_storage().
◆ flush_node_storage()
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inline |
Flush storage for nodes (only) by emptying the vectors that store the pointers to them.
Definition at line 430 of file mesh.h.
References Node_pt.
Referenced by flush_element_and_node_storage(), and oomph::RefineableTriangleMesh< ELEMENT >::snap_nodes_onto_boundary().
◆ get_all_halo_data()
| void oomph::Mesh::get_all_halo_data | ( | std::map< unsigned, double * > & | map_of_halo_data | ) |
Get all the halo data stored in the mesh and add pointers to the data to the map, indexed by global equation number.
Repeat for the external data
Definition at line 4749 of file mesh.cc.
References oomph::GeneralisedElement::add_internal_value_pt_to_map(), e, External_halo_element_pt, External_halo_node_pt, Halo_node_pt, Root_halo_element_pt, oomph::Tree::stick_leaves_into_vector(), and oomph::RefineableElement::tree_pt().
Referenced by oomph::Problem::get_all_halo_data().
◆ get_efficiency_of_mesh_distribution()
| void oomph::Mesh::get_efficiency_of_mesh_distribution | ( | double & | av_efficiency, |
| double & | max_efficiency, | ||
| double & | min_efficiency | ||
| ) |
Get efficiency of mesh distribution: In an ideal distribution without halo overhead, each processor would only hold its own elements. Efficieny per processor = (number of non-halo elements)/ (total number of elements).
Definition at line 6390 of file mesh.cc.
References Comm_pt, halo_element_pt(), i, and nelement().
◆ get_external_halo_node_pt()
Get vector of pointers to all external halo nodes.
Definition at line 2323 of file mesh.h.
References External_halo_node_pt, external_halo_node_pt(), and nexternal_halo_node().
Referenced by node_update().
◆ get_halo_node_stats()
| void oomph::Mesh::get_halo_node_stats | ( | double & | av_number, |
| unsigned & | max_number, | ||
| unsigned & | min_number | ||
| ) |
Get halo node stats for this distributed mesh: Average/max/min number of halo nodes over all processors. Careful: Involves MPI Broadcasts and must therefore be called on all processors!
Definition at line 4845 of file mesh.cc.
References Comm_pt, i, and nhalo_node().
◆ get_haloed_node_stats()
| void oomph::Mesh::get_haloed_node_stats | ( | double & | av_number, |
| unsigned & | max_number, | ||
| unsigned & | min_number | ||
| ) |
Get haloed node stats for this distributed mesh: Average/max/min number of haloed nodes over all processors. Careful: Involves MPI Broadcasts and must therefore be called on all processors!
Definition at line 4904 of file mesh.cc.
References Comm_pt, i, and nhaloed_node().
◆ get_node_reordering()
|
virtual |
Get a reordering of the nodes in the order in which they appear in elements – can be overloaded for more efficient re-ordering.
Get a vector of the nodes in the order in which they are encountered when stepping through the elements (similar to reorder_nodes() but without changing the mesh's node vector).
Definition at line 532 of file mesh.cc.
References e, element_pt(), i, nelement(), oomph::FiniteElement::nnode(), nnode(), oomph::NodeOrdering::node_global_position_comparison(), oomph::FiniteElement::node_pt(), node_pt(), and oomph::Global_string_for_annotation::string().
Referenced by dump(), and reorder_nodes().
◆ get_shared_node_pt()
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inline |
Get vector of pointers to shared nodes with processor p. Required for faster search in Missing_masters_functions::add_external_haloed_node_helper() and Missing_masters_functions::add_external_haloed_master_node_helper()
Definition at line 2119 of file mesh.h.
References nshared_node(), oomph::Node::resize(), Shared_node_pt, and shared_node_pt().
Referenced by oomph::Missing_masters_functions::add_external_haloed_master_node_helper(), and oomph::Missing_masters_functions::add_external_haloed_node_helper().
◆ get_some_non_boundary_node()
|
inline |
◆ halo_element_pt()
|
inline |
Return vector of halo elements in this Mesh whose non-halo counterpart is held on processor p.
Definition at line 1740 of file mesh.h.
References e, nroot_halo_element(), root_halo_element_pt(), oomph::Tree::stick_leaves_into_vector(), and oomph::RefineableElement::tree_pt().
Referenced by oomph::TreeBasedRefineableMeshBase::adapt(), check_halo_schemes(), classify_halo_and_haloed_nodes(), oomph::Missing_masters_functions::construct_new_external_halo_master_node_helper(), oomph::Problem::copy_haloed_eqn_numbers_helper(), oomph::MacroElementNodeUpdateMesh::distribute(), doc_mesh_distribution(), get_efficiency_of_mesh_distribution(), oomph::Z2ErrorEstimator::get_element_errors(), oomph::TreeBasedRefineableMeshBase::p_adapt(), prune_halo_elements_and_nodes(), setup_shared_node_scheme(), oomph::Problem::synchronise_dofs(), and oomph::TreeBasedRefineableMeshBase::synchronise_nonhanging_nodes().
◆ halo_node_pt()
|
inline |
Access fct to the j-th halo node in this Mesh whose non-halo counterpart is held on processor p.
Definition at line 1914 of file mesh.h.
References Halo_node_pt.
Referenced by check_halo_schemes(), oomph::Problem::copy_haloed_eqn_numbers_helper(), doc_mesh_distribution(), resize_halo_nodes(), oomph::Problem::synchronise_dofs(), oomph::TreeBasedRefineableMeshBase::synchronise_hanging_nodes(), and synchronise_shared_nodes().
◆ haloed_element_pt()
|
inline |
Return vector of haloed elements in this Mesh whose haloing counterpart is held on processor p.
Definition at line 1779 of file mesh.h.
References e, nroot_haloed_element(), root_haloed_element_pt(), oomph::Tree::stick_leaves_into_vector(), and oomph::RefineableElement::tree_pt().
Referenced by oomph::TreeBasedRefineableMeshBase::adapt(), check_halo_schemes(), classify_halo_and_haloed_nodes(), oomph::Problem::copy_haloed_eqn_numbers_helper(), doc_mesh_distribution(), oomph::Z2ErrorEstimator::get_element_errors(), oomph::Missing_masters_functions::get_required_master_nodal_information_helper(), oomph::TreeBasedRefineableMeshBase::p_adapt(), prune_halo_elements_and_nodes(), oomph::Problem::send_refinement_info_helper(), setup_shared_node_scheme(), oomph::Problem::synchronise_dofs(), and oomph::TreeBasedRefineableMeshBase::synchronise_nonhanging_nodes().
◆ haloed_node_pt()
|
inline |
Access fct to the j-th haloed node in this Mesh whose halo counterpart is held on processor p.
Definition at line 2014 of file mesh.h.
References Haloed_node_pt.
Referenced by check_halo_schemes(), oomph::Problem::copy_haloed_eqn_numbers_helper(), doc_mesh_distribution(), resize_halo_nodes(), oomph::Problem::synchronise_dofs(), oomph::TreeBasedRefineableMeshBase::synchronise_hanging_nodes(), and synchronise_shared_nodes().
◆ is_mesh_distributed()
|
inline |
Boolean to indicate if Mesh has been distributed.
Definition at line 1588 of file mesh.h.
References communicator_pt().
Referenced by oomph::TreeBasedRefineableMeshBase::adapt(), oomph::TreeBasedRefineableMeshBase::adapt_mesh(), build_face_mesh(), oomph::MeshAsGeomObject::build_it(), delete_all_external_storage(), oomph::DummyErrorEstimator::DummyErrorEstimator(), oomph::Problem::dump(), oomph::TriangleMeshBase::dump_triangulateio(), oomph::Z2ErrorEstimator::get_element_errors(), ndof_types(), oomph::TreeBasedRefineableMeshBase::p_adapt(), oomph::TreeBasedRefineableMeshBase::p_adapt_mesh(), oomph::TreeBasedRefineableMeshBase::p_refine_selected_elements(), oomph::Problem::read(), oomph::TreeBasedRefineableMeshBase::refine_base_mesh(), oomph::TreeBasedRefineableMeshBase::refine_selected_elements(), oomph::TriangleMesh< ELEMENT >::remesh_from_internal_triangulateio(), oomph::TriangleMeshBase::remesh_from_triangulateio(), resize_halo_nodes(), and oomph::UnstructuredTwoDMeshGeometryBase::setup_boundary_coordinates().
◆ max_and_min_element_size()
|
inline |
Determine max and min area for all FiniteElements in the mesh (non-FiniteElements are ignored)
Definition at line 692 of file mesh.h.
References e, finite_element_pt(), and nelement().
◆ merge_meshes()
Merge meshes. Note: This simply merges the meshes' elements and nodes (ignoring duplicates; no boundary information etc. is created).
Definition at line 65 of file mesh.cc.
References Boundary_node_pt, boundary_node_pt(), e, Element_pt, Lookup_for_elements_next_boundary_is_setup, and Node_pt.
Referenced by Mesh(), oomph::Problem::rebuild_global_mesh(), and oomph::SolidMesh::SolidMesh().
◆ nboundary()
|
inline |
Return number of boundaries.
Definition at line 827 of file mesh.h.
References Boundary_node_pt.
Referenced by oomph::RefineableGmshTetMesh< ELEMENT >::adapt(), oomph::RefineableTetgenMesh< ELEMENT >::adapt(), oomph::RefineableTriangleMesh< ELEMENT >::adapt(), oomph::TreeBasedRefineableMeshBase::adapt_mesh(), oomph::GmshTetMesh< ELEMENT >::build_from_scaffold(), oomph::QuadFromTriangleMesh< ELEMENT >::build_from_scaffold(), oomph::GmshTetMesh< ELEMENT >::build_it(), oomph::ExtrudedCubeMeshFromQuadMesh< ELEMENT >::build_mesh(), oomph::CollapsibleChannelMesh< ELEMENT >::CollapsibleChannelMesh(), copy_boundary_node_data_from_nodes(), oomph::TwoDimensionalPMLHelper::create_bottom_left_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_bottom_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_bottom_right_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_left_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_right_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_top_left_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_top_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_top_right_pml_mesh(), delete_all_external_storage(), distribute(), doc_mesh_distribution(), oomph::TriangleMeshBase::dump_triangulateio(), oomph::FSIDrivenCavityMesh< ELEMENT >::FSIDrivenCavityMesh(), oomph::ExtrudedCubeMeshFromQuadMesh< ELEMENT >::get_element_boundary_information(), oomph::NavierStokesSchurComplementPreconditioner::get_pressure_advection_diffusion_matrix(), oomph::Missing_masters_functions::get_required_master_nodal_information_helper(), oomph::Multi_domain_functions::get_required_master_nodal_information_helper(), oomph::Missing_masters_functions::get_required_nodal_information_helper(), oomph::Multi_domain_functions::get_required_nodal_information_helper(), oomph::NonLinearElasticitySmoothMesh< ELEMENT >::operator()(), output_boundaries(), oomph::TreeBasedRefineableMeshBase::p_adapt_mesh(), prune_dead_nodes(), oomph::QuadFromTriangleMesh< ELEMENT >::QuadFromTriangleMesh(), oomph::RefineableTetgenMesh< ELEMENT >::RefineableTetgenMesh(), oomph::TriangleMesh< ELEMENT >::remesh_from_internal_triangulateio(), oomph::TriangleMeshBase::remesh_from_triangulateio(), oomph::BrickMeshBase::setup_boundary_element_info(), oomph::LineMeshBase::setup_boundary_element_info(), oomph::QuadMeshBase::setup_boundary_element_info(), oomph::TetMeshBase::setup_boundary_element_info(), oomph::TriangleMeshBase::setup_boundary_element_info(), oomph::TetMeshBase::snap_nodes_onto_geometric_objects(), oomph::UnstructuredTwoDMeshGeometryBase::snap_nodes_onto_geometric_objects(), oomph::SolidTetgenMesh< ELEMENT >::SolidTetgenMesh(), oomph::TetMeshBase::split_elements_in_corners(), oomph::TetgenMesh< ELEMENT >::TetgenMesh(), oomph::TriangleMesh< ELEMENT >::TriangleMesh(), and oomph::FpPressureAdvectionDiffusionProblem< ELEMENT >::validate().
◆ nboundary_element()
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inline |
Return number of finite elements that are adjacent to boundary b.
Definition at line 878 of file mesh.h.
References Boundary_element_pt, and Lookup_for_elements_next_boundary_is_setup.
Referenced by oomph::RefineableGmshTetMesh< ELEMENT >::adapt(), oomph::RefineableTetgenMesh< ELEMENT >::adapt(), oomph::RefineableTriangleMesh< ELEMENT >::adapt(), oomph::TreeBasedRefineableMeshBase::adapt_mesh(), build_face_mesh(), oomph::TwoDimensionalPMLHelper::create_bottom_left_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_bottom_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_bottom_right_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_left_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_right_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_top_left_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_top_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_top_right_pml_mesh(), distribute(), doc_boundary_coordinates(), doc_mesh_distribution(), oomph::ExtrudedCubeMeshFromQuadMesh< ELEMENT >::get_element_boundary_information(), oomph::NavierStokesSchurComplementPreconditioner::get_pressure_advection_diffusion_matrix(), oomph::NonLinearElasticitySmoothMesh< ELEMENT >::operator()(), oomph::TreeBasedRefineableMeshBase::p_adapt_mesh(), oomph::TetMeshBase::setup_boundary_coordinates(), oomph::UnstructuredTwoDMeshGeometryBase::setup_boundary_coordinates(), oomph::RefineableTetgenMesh< ELEMENT >::snap_nodes_onto_boundary(), oomph::RefineableTriangleMesh< ELEMENT >::snap_nodes_onto_boundary(), oomph::TetMeshBase::snap_to_quadratic_surface(), oomph::TetMeshBase::split_elements_in_corners(), oomph::ThinLayerBrickOnTetMesh< ELEMENT >::ThinLayerBrickOnTetMesh(), and oomph::FpPressureAdvectionDiffusionProblem< ELEMENT >::validate().
◆ nboundary_node()
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inline |
Return number of nodes on a particular boundary.
Definition at line 833 of file mesh.h.
References Boundary_node_pt.
Referenced by oomph::RefineableGmshTetMesh< ELEMENT >::adapt(), oomph::RefineableTetgenMesh< ELEMENT >::adapt(), oomph::RefineableTriangleMesh< ELEMENT >::adapt(), oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::BrethertonSpineMesh(), build_face_mesh(), oomph::ExtrudedCubeMeshFromQuadMesh< ELEMENT >::build_mesh(), oomph::TwoDimensionalPMLHelper::create_bottom_left_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_bottom_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_bottom_right_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_left_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_right_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_top_left_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_top_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_top_right_pml_mesh(), oomph::TriangleMeshBase::dump_triangulateio(), oomph::ElasticRefineableRectangularQuadMesh< ELEMENT >::ElasticRefineableRectangularQuadMesh(), oomph::PMLCornerQuadMesh< ELEMENT >::PMLCornerQuadMesh(), oomph::PMLQuadMesh< ELEMENT >::PMLQuadMesh(), oomph::QuarterPipeMesh< ELEMENT >::QuarterPipeMesh(), oomph::RefineableQuadMeshWithMovingCylinder< ELEMENT >::RefineableQuadMeshWithMovingCylinder(), oomph::TriangleMeshBase::remesh_from_triangulateio(), oomph::TetMeshBase::setup_boundary_coordinates(), oomph::RefineableTetgenMesh< ELEMENT >::snap_nodes_onto_boundary(), oomph::RefineableTriangleMesh< ELEMENT >::snap_nodes_onto_boundary(), oomph::TetMeshBase::snap_nodes_onto_geometric_objects(), oomph::UnstructuredTwoDMeshGeometryBase::snap_nodes_onto_geometric_objects(), and oomph::ThinLayerBrickOnTetMesh< ELEMENT >::ThinLayerBrickOnTetMesh().
◆ ndof_types()
| unsigned oomph::Mesh::ndof_types | ( | ) | const |
Return number of dof types in mesh.
Get the number of dof types in the mesh from the first element of the mesh. If MPI is on then also do some consistency checks between processors. Careful: Involves MPI Broadcasts and must therefore be called on all processors!
Definition at line 8764 of file mesh.cc.
References Comm_pt, element_pt(), i, is_mesh_distributed(), and nelement().
Referenced by oomph::BlockPreconditioner< MATRIX >::ndof_types_in_mesh().
◆ nelement()
|
inline |
Return number of elements in the mesh.
Definition at line 590 of file mesh.h.
References Element_pt.
Referenced by oomph::IMRByBDF::actions_after_timestep(), oomph::RefineableGmshTetMesh< ELEMENT >::adapt(), oomph::RefineableTetgenMesh< ELEMENT >::adapt(), oomph::RefineableTriangleMesh< ELEMENT >::adapt(), oomph::TreeBasedRefineableMeshBase::adapt(), oomph::TreeBasedRefineableMeshBase::adapt_mesh(), oomph::PeriodicOrbitAssemblyHandler< NNODE_1D >::adapt_temporal_mesh(), oomph::NavierStokesSchurComplementPreconditioner::assemble_inv_press_and_veloc_mass_matrix_diagonal(), oomph::PressureBasedSolidLSCPreconditioner::assemble_mass_matrix_diagonal(), oomph::PeriodicOrbitTemporalMesh< ELEMENT >::assemble_residuals(), oomph::PeriodicOrbitTemporalMesh< ELEMENT >::assemble_residuals_and_jacobian(), oomph::TetMeshBase::assess_mesh_quality(), oomph::Problem::assign_eqn_numbers(), assign_initial_values_impulsive(), oomph::Multi_domain_functions::aux_setup_multi_domain_interaction(), oomph::SolidICProblem::backup_original_state(), oomph::BackupMeshForProjection< GEOMETRIC_ELEMENT >::BackupMeshForProjection(), oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::BrethertonSpineMesh(), oomph::GmshTetMesh< ELEMENT >::build_from_scaffold(), oomph::QuadFromTriangleMesh< ELEMENT >::build_from_scaffold(), oomph::MeshAsGeomObject::build_it(), oomph::ExtrudedCubeMeshFromQuadMesh< ELEMENT >::build_mesh(), calculate_predictions(), check_halo_schemes(), check_inverted_elements(), oomph::TriangleScaffoldMesh::check_mesh_integrity(), classify_halo_and_haloed_nodes(), oomph::TreeBasedRefineableMeshBase::classify_halo_and_haloed_nodes(), oomph::CollapsibleChannelMesh< ELEMENT >::CollapsibleChannelMesh(), oomph::RefineableTetMeshBase::compute_volume_target(), convert_to_boundary_node(), oomph::Problem::copy(), oomph::TwoDimensionalPMLHelper::create_bottom_left_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_bottom_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_bottom_right_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_left_pml_mesh(), oomph::GmshTetScaffoldMesh::create_mesh_from_msh_file(), oomph::TwoDimensionalPMLHelper::create_right_pml_mesh(), oomph::RefineableTriangleMesh< ELEMENT >::create_sorted_face_mesh_representation(), oomph::TwoDimensionalPMLHelper::create_top_left_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_top_pml_mesh(), oomph::TwoDimensionalPMLHelper::create_top_right_pml_mesh(), oomph::RefineableTriangleMesh< ELEMENT >::create_unsorted_face_mesh_representation(), oomph::Problem::disable_mass_matrix_reuse(), oomph::Problem::distribute(), distribute(), oomph::SolidHelpers::doc_2D_principal_stress(), doc_boundary_coordinates(), oomph::Z2ErrorEstimator::doc_flux(), oomph::FSI_functions::doc_fsi(), doc_mesh_distribution(), does_pointer_correspond_to_mesh_data(), oomph::DummyErrorEstimator::DummyErrorEstimator(), dump(), oomph::ElasticRefineableQuarterPipeMesh< ELEMENT >::ElasticRefineableQuarterPipeMesh(), elemental_dimension(), oomph::Problem::enable_mass_matrix_reuse(), oomph::NetFluxControlElement::fill_in_generic_residual_contribution_flux_control(), oomph::FoldHandler::FoldHandler(), oomph::FSIDrivenCavityMesh< ELEMENT >::FSIDrivenCavityMesh(), oomph::Problem::get_data_to_be_sent_during_load_balancing(), oomph::Multi_domain_functions::get_dim_helper(), get_efficiency_of_mesh_distribution(), oomph::Z2ErrorEstimator::get_element_errors(), oomph::DummyErrorEstimator::get_element_errors(), oomph::Problem::get_flat_packed_refinement_pattern_for_load_balancing(), oomph::ImmersedRigidBodyElement::get_force_and_torque(), oomph::Problem::get_hessian_vector_products(), oomph::Problem::get_inverse_mass_matrix_times_residuals(), oomph::Problem::get_jacobian(), get_node_reordering(), oomph::NavierStokesSchurComplementPreconditioner::get_pressure_advection_diffusion_matrix(), oomph::TreeBasedRefineableMeshBase::get_refinement_levels(), oomph::Problem::get_residuals(), oomph::FoldHandler::get_residuals(), oomph::HopfHandler::get_residuals(), oomph::HopfHandler::HopfHandler(), oomph::ImposeFluxForWomersleyElement< DIM >::ImposeFluxForWomersleyElement(), oomph::DGMesh::limit_slopes(), oomph::Problem::load_balance(), oomph::MacroElementNodeUpdateChannelWithLeafletMesh< ELEMENT >::MacroElementNodeUpdateChannelWithLeafletMesh(), oomph::MacroElementNodeUpdateCollapsibleChannelMesh< ELEMENT >::MacroElementNodeUpdateCollapsibleChannelMesh(), oomph::MacroElementNodeUpdateRefineableFishMesh< ELEMENT >::MacroElementNodeUpdateRefineableFishMesh(), max_and_min_element_size(), oomph::HelmholtzMGPreconditioner< DIM >::maximum_edge_width(), ndof_types(), oomph::NetFluxControlElement::NetFluxControlElement(), nnon_halo_element(), nodal_dimension(), node_update(), oomph::ImmersedRigidBodyElement::node_update_adjacent_fluid_elements(), oomph::NonLinearElasticitySmoothMesh< ELEMENT >::operator()(), oomph::LinearElasticitySmoothMesh< LINEAR_ELASTICITY_ELEMENT >::operator()(), oomph::PoissonSmoothMesh< POISSON_ELEMENT >::operator()(), oomph::PeriodicOrbitTemporalMesh< ELEMENT >::orbit_output(), oomph::PeriodicOrbitAssemblyHandler< NNODE_1D >::orbit_output(), oomph::TreeBasedRefineableMeshBase::p_adapt(), oomph::TreeBasedRefineableMeshBase::p_adapt_mesh(), oomph::TreeBasedRefineableMeshBase::p_refine_uniformly(), oomph::TreeBasedRefineableMeshBase::p_unrefine_uniformly(), oomph::Problem::parallel_sparse_assemble(), oomph::METIS::partition_distributed_mesh(), oomph::METIS::partition_mesh(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::pin_all(), oomph::NavierStokesSchurComplementPreconditioner::pin_all_non_pressure_dofs(), oomph::FpPressureAdvectionDiffusionProblem< ELEMENT >::pin_all_non_pressure_dofs(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::pin_dofs_of_field(), oomph::PitchForkHandler::PitchForkHandler(), oomph::MGSolver< DIM >::plot(), oomph::PMLCornerQuadMesh< ELEMENT >::PMLCornerQuadMesh(), oomph::PMLQuadMesh< ELEMENT >::PMLQuadMesh(), oomph::WomersleyImpedanceTubeBase< ELEMENT, DIM >::precompute_aux_integrals(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::project(), oomph::Problem::prune_halo_elements_and_nodes(), prune_halo_elements_and_nodes(), oomph::QuarterCircleSectorMesh< ELEMENT >::QuarterCircleSectorMesh(), oomph::QuarterPipeMesh< ELEMENT >::QuarterPipeMesh(), read(), oomph::Problem::read(), oomph::Problem::recompute_load_balanced_assembly(), oomph::TreeBasedRefineableMeshBase::refine_as_in_reference_mesh(), oomph::Problem::refine_distributed_base_mesh(), oomph::TreeBasedRefineableMeshBase::refine_uniformly(), oomph::RefineableEighthSphereMesh< ELEMENT >::RefineableEighthSphereMesh(), oomph::RefineableTwoDAnnularMesh< ELEMENT >::RefineableTwoDAnnularMesh(), oomph::TriangleMesh< ELEMENT >::remesh_from_internal_triangulateio(), oomph::Problem::remove_duplicate_data(), oomph::HSL_MA42::reorder_elements(), oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::reposition_spines(), oomph::SolidICProblem::reset_original_state(), oomph::FpPressureAdvectionDiffusionProblem< ELEMENT >::reset_pin_status(), oomph::NavierStokesSchurComplementPreconditioner::reset_pin_status(), oomph::AugmentedBlockFoldLinearSolver::resolve(), oomph::AugmentedBlockPitchForkLinearSolver::resolve(), set_consistent_pinned_values_for_continuation(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::set_coordinate_for_projection(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::set_current_field_for_projection(), oomph::Problem::set_default_first_and_last_element_for_assembly(), oomph::ImmersedRigidBodyElement::set_drag_mesh(), set_elemental_internal_time_stepper(), oomph::NavierStokesImpedanceTractionElement< BULK_NAVIER_STOKES_ELEMENT, WOMERSLEY_ELEMENT, DIM >::set_external_data_from_navier_stokes_outflow_mesh(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::set_lagrangian_coordinate_for_projection(), oomph::SolidICProblem::set_newmark_initial_condition_consistently(), oomph::Problem::set_pinned_values_to_zero(), oomph::MGSolver< DIM >::set_self_test_vector(), oomph::BiharmonicProblem< DIM >::set_source_function(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::set_time_level_for_projection(), oomph::AlgebraicRefineableQuarterTubeMesh< ELEMENT >::setup_algebraic_node_update(), oomph::RefineableLineMesh< ELEMENT >::setup_binary_tree_forest(), oomph::BrickMeshBase::setup_boundary_element_info(), oomph::LineMeshBase::setup_boundary_element_info(), oomph::QuadMeshBase::setup_boundary_element_info(), oomph::TetMeshBase::setup_boundary_element_info(), oomph::TriangleMeshBase::setup_boundary_element_info(), oomph::Problem::setup_dof_halo_scheme(), oomph::Problem::setup_element_count_per_dof(), oomph::DGMesh::setup_face_neighbour_info(), oomph::MGSolver< DIM >::setup_interpolation_matrices(), oomph::HelmholtzMGPreconditioner< DIM >::setup_interpolation_matrices(), oomph::MacroElementNodeUpdateRefineableQuarterCircleSectorMesh< ELEMENT >::setup_macro_element_node_update(), oomph::MacroElementNodeUpdateRefineableQuarterTubeMesh< ELEMENT >::setup_macro_element_node_update(), oomph::RefineableBrickMesh< ELEMENT >::setup_octree_forest(), oomph::VorticitySmoother< ELEMENT >::setup_patches(), oomph::Z2ErrorEstimator::setup_patches(), oomph::SolidICProblem::setup_problem(), oomph::RefineableQuadMesh< ELEMENT >::setup_quadtree_forest(), shift_time_values(), oomph::RefineableTetgenMesh< ELEMENT >::snap_nodes_onto_boundary(), oomph::TetMeshBase::snap_nodes_onto_geometric_objects(), oomph::AugmentedBlockFoldLinearSolver::solve(), oomph::AugmentedBlockPitchForkLinearSolver::solve(), oomph::BlockHopfLinearSolver::solve(), oomph::HSL_MA42::solve(), oomph::HSL_MA42::solve_for_one_dof(), oomph::BlockHopfLinearSolver::solve_for_two_rhs(), oomph::Problem::sparse_assemble_row_or_column_compressed_with_lists(), oomph::Problem::sparse_assemble_row_or_column_compressed_with_maps(), oomph::Problem::sparse_assemble_row_or_column_compressed_with_two_arrays(), oomph::Problem::sparse_assemble_row_or_column_compressed_with_two_vectors(), oomph::Problem::sparse_assemble_row_or_column_compressed_with_vectors_of_pairs(), oomph::TetMeshBase::split_elements_in_corners(), oomph::Problem::synchronise_eqn_numbers(), total_size(), oomph::ImposeFluxForWomersleyElement< DIM >::total_volume_flux(), oomph::NavierStokesImpedanceTractionElement< BULK_NAVIER_STOKES_ELEMENT, WOMERSLEY_ELEMENT, DIM >::total_volume_flux_into_downstream_tube(), oomph::WomersleyImpedanceTubeBase< ELEMENT, DIM >::total_volume_flux_into_impedance_tube(), oomph::METIS::uniform_partition_mesh(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::unpin_all(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::unpin_dofs_of_field(), oomph::TreeBasedRefineableMeshBase::unrefine_uniformly(), oomph::RefineableTetgenMesh< ELEMENT >::update_faceted_surface_using_face_mesh(), oomph::FpPressureAdvectionDiffusionProblem< ELEMENT >::validate(), oomph::WomersleyImpedanceTubeBase< ELEMENT, DIM >::WomersleyImpedanceTubeBase(), oomph::WomersleyMesh< WOMERSLEY_ELEMENT >::WomersleyMesh(), and oomph::WomersleyProblem< ELEMENT, DIM >::WomersleyProblem().
◆ nexternal_halo_element() [1/2]
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inline |
Total number of external halo elements in this Mesh.
Definition at line 2222 of file mesh.h.
References External_halo_element_pt.
Referenced by oomph::Problem::assign_eqn_numbers(), oomph::Multi_domain_functions::aux_setup_multi_domain_interaction(), oomph::Problem::copy_haloed_eqn_numbers_helper(), delete_all_external_storage(), oomph::FSI_functions::doc_fsi(), oomph::Problem::remove_duplicate_data(), and oomph::Problem::synchronise_dofs().
◆ nexternal_halo_element() [2/2]
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inline |
Number of external halo elements in this Mesh whose non-halo counterpart is held on processor p.
Definition at line 2237 of file mesh.h.
References External_halo_element_pt.
◆ nexternal_halo_node() [1/2]
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inline |
Total number of external halo nodes in this Mesh.
Definition at line 2308 of file mesh.h.
References External_halo_node_pt.
Referenced by oomph::Multi_domain_functions::aux_setup_multi_domain_interaction(), oomph::Problem::copy_haloed_eqn_numbers_helper(), delete_all_external_storage(), get_external_halo_node_pt(), oomph::AlgebraicMesh::node_update(), oomph::MacroElementNodeUpdateMesh::node_update(), resize_halo_nodes(), and oomph::Problem::synchronise_dofs().
◆ nexternal_halo_node() [2/2]
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inline |
Number of external halo nodes in this Mesh whose non-halo (external) counterpart is held on processor p.
Definition at line 2354 of file mesh.h.
References External_halo_node_pt.
◆ nexternal_haloed_element() [1/2]
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inline |
Total number of external haloed elements in this Mesh.
Definition at line 2267 of file mesh.h.
References External_haloed_element_pt.
Referenced by add_external_haloed_element_pt(), oomph::Multi_domain_functions::aux_setup_multi_domain_interaction(), oomph::Problem::copy_haloed_eqn_numbers_helper(), oomph::Missing_masters_functions::get_required_master_nodal_information_helper(), oomph::Multi_domain_functions::get_required_master_nodal_information_helper(), oomph::Multi_domain_functions::locate_zeta_for_missing_coordinates(), and oomph::Problem::synchronise_dofs().
◆ nexternal_haloed_element() [2/2]
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inline |
Number of external haloed elements in this Mesh whose non-halo counterpart is held on processor p.
Definition at line 2282 of file mesh.h.
References External_haloed_element_pt.
◆ nexternal_haloed_node() [1/2]
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inline |
Total number of external haloed nodes in this Mesh.
Definition at line 2412 of file mesh.h.
References External_haloed_node_pt.
Referenced by oomph::Missing_masters_functions::add_external_haloed_master_node_helper(), oomph::Multi_domain_functions::add_external_haloed_master_node_helper(), oomph::Missing_masters_functions::add_external_haloed_node_helper(), oomph::Multi_domain_functions::add_external_haloed_node_helper(), add_external_haloed_node_pt(), oomph::Multi_domain_functions::aux_setup_multi_domain_interaction(), oomph::Problem::copy_haloed_eqn_numbers_helper(), resize_halo_nodes(), and oomph::Problem::synchronise_dofs().
◆ nexternal_haloed_node() [2/2]
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inline |
Number of external haloed nodes in this Mesh whose halo (external) counterpart is held on processor p.
Definition at line 2427 of file mesh.h.
References External_haloed_node_pt.
◆ nhalo_node() [1/2]
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inline |
Total number of halo nodes in this Mesh.
Definition at line 1878 of file mesh.h.
References Halo_node_pt.
Referenced by oomph::Multi_domain_functions::aux_setup_multi_domain_interaction(), check_halo_schemes(), classify_halo_and_haloed_nodes(), oomph::Problem::copy_haloed_eqn_numbers_helper(), doc_mesh_distribution(), get_halo_node_stats(), prune_halo_elements_and_nodes(), resize_halo_nodes(), oomph::Problem::synchronise_dofs(), oomph::TreeBasedRefineableMeshBase::synchronise_hanging_nodes(), and synchronise_shared_nodes().
◆ nhalo_node() [2/2]
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inline |
Number of halo nodes in this Mesh whose non-halo counterpart is held on processor p.
Definition at line 1893 of file mesh.h.
References Halo_node_pt.
◆ nhaloed_node() [1/2]
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inline |
Total number of haloed nodes in this Mesh.
Definition at line 1985 of file mesh.h.
References Haloed_node_pt.
Referenced by oomph::Multi_domain_functions::aux_setup_multi_domain_interaction(), check_halo_schemes(), classify_halo_and_haloed_nodes(), oomph::Problem::copy_haloed_eqn_numbers_helper(), doc_mesh_distribution(), get_haloed_node_stats(), prune_halo_elements_and_nodes(), resize_halo_nodes(), oomph::Problem::synchronise_dofs(), oomph::TreeBasedRefineableMeshBase::synchronise_hanging_nodes(), and synchronise_shared_nodes().
◆ nhaloed_node() [2/2]
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inline |
Number of haloed nodes in this Mesh whose haloed counterpart is held on processor p.
Definition at line 2001 of file mesh.h.
References Haloed_node_pt.
◆ nnode()
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inline |
Return number of nodes in the mesh.
Definition at line 596 of file mesh.h.
References Node_pt.
Referenced by oomph::IMRByBDF::actions_after_timestep(), oomph::NonLinearElasticitySmoothMesh< ELEMENT >::actions_before_newton_solve(), oomph::RefineableGmshTetMesh< ELEMENT >::adapt(), oomph::RefineableTetgenMesh< ELEMENT >::adapt(), oomph::RefineableTriangleMesh< ELEMENT >::adapt(), oomph::TreeBasedRefineableMeshBase::adapt_mesh(), oomph::PeriodicOrbitAssemblyHandler< NNODE_1D >::adapt_temporal_mesh(), assign_initial_values_impulsive(), oomph::Multi_domain_functions::aux_setup_multi_domain_interaction(), oomph::NonLinearElasticitySmoothMesh< ELEMENT >::backup(), oomph::SolidICProblem::backup_original_state(), oomph::BackupMeshForProjection< GEOMETRIC_ELEMENT >::BackupMeshForProjection(), oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::BrethertonSpineMesh(), oomph::GmshTetMesh< ELEMENT >::build_from_scaffold(), oomph::MeshAsGeomObject::build_it(), oomph::ExtrudedCubeMeshFromQuadMesh< ELEMENT >::build_mesh(), calculate_predictions(), check_for_repeated_nodes(), oomph::TriangleScaffoldMesh::check_mesh_integrity(), classify_halo_and_haloed_nodes(), oomph::CollapsibleChannelMesh< ELEMENT >::CollapsibleChannelMesh(), oomph::TreeBasedRefineableMeshBase::complete_hanging_nodes(), oomph::AddedMainNumberingLookup::construct_added_to_main_mapping(), oomph::Problem::copy(), copy_boundary_node_data_from_nodes(), delete_all_external_storage(), distribute(), oomph::FSI_functions::doc_fsi(), doc_mesh_distribution(), oomph::FpPressureAdvectionDiffusionProblem< ELEMENT >::doc_solution(), does_pointer_correspond_to_mesh_data(), dump(), oomph::FSIDrivenCavityMesh< ELEMENT >::FSIDrivenCavityMesh(), oomph::Z2ErrorEstimator::get_element_errors(), get_node_reordering(), get_some_non_boundary_node(), oomph::AlgebraicMesh::node_update(), oomph::MacroElementNodeUpdateMesh::node_update(), node_update(), oomph::NonLinearElasticitySmoothMesh< ELEMENT >::operator()(), oomph::LinearElasticitySmoothMesh< LINEAR_ELASTICITY_ELEMENT >::operator()(), oomph::PoissonSmoothMesh< POISSON_ELEMENT >::operator()(), oomph::TreeBasedRefineableMeshBase::p_adapt_mesh(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::pin_all(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::pin_dofs_of_coordinate(), oomph::PMLQuadMeshBase< ELEMENT >::pml_locate_zeta(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::project(), prune_dead_nodes(), prune_halo_elements_and_nodes(), read(), oomph::VorticitySmoother< ELEMENT >::recover_vorticity(), oomph::TriangleMesh< ELEMENT >::remesh_from_internal_triangulateio(), reorder_nodes(), oomph::NonLinearElasticitySmoothMesh< ELEMENT >::reset(), oomph::SolidICProblem::reset_original_state(), oomph::FpPressureAdvectionDiffusionProblem< ELEMENT >::reset_pin_status(), oomph::NavierStokesSchurComplementPreconditioner::reset_pin_status(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::restore_positions(), scale_mesh(), oomph::AlgebraicMesh::self_test(), set_consistent_pinned_values_for_continuation(), oomph::SolidMesh::set_lagrangian_nodal_coordinates(), oomph::SolidICProblem::set_newmark_initial_condition_consistently(), oomph::SolidICProblem::set_newmark_initial_condition_directly(), set_nodal_time_stepper(), oomph::Problem::set_pinned_values_to_zero(), oomph::MGSolver< DIM >::setup_interpolation_matrices_unstructured(), oomph::HelmholtzMGPreconditioner< DIM >::setup_interpolation_matrices_unstructured(), oomph::SolidICProblem::setup_problem(), shift_time_values(), oomph::TetMeshBase::snap_nodes_onto_geometric_objects(), oomph::TetMeshBase::split_elements_in_corners(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::store_positions(), oomph::Problem::synchronise_eqn_numbers(), oomph::TriangleScaffoldMesh::TriangleScaffoldMesh(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::unpin_all(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::unpin_dofs_of_coordinate(), oomph::TriangleMesh< ELEMENT >::update_triangulateio(), and oomph::WomersleyMesh< WOMERSLEY_ELEMENT >::WomersleyMesh().
◆ nnon_halo_element()
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inline |
Total number of non-halo elements in this mesh (Costly call computes result on the fly)
Definition at line 1817 of file mesh.h.
References e, element_pt(), and nelement().
Referenced by oomph::Problem::load_balance().
◆ nodal_dimension()
| unsigned oomph::Mesh::nodal_dimension | ( | ) | const |
Return number of nodal dimension in mesh.
Get the number of nodal dimension in the mesh from the first element of the mesh. If MPI is on then also do some consistency checks between processors. Careful: Involves MPI Broadcasts and must therefore be called on all processors!
Definition at line 9055 of file mesh.cc.
References Comm_pt, finite_element_pt(), i, nelement(), and oomph::FiniteElement::nodal_dimension().
Referenced by oomph::LagrangeEnforcedFlowPreconditioner::set_meshes().
◆ node_pt() [1/2]
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inline |
Return pointer to global node n.
Definition at line 436 of file mesh.h.
References Node_pt.
Referenced by oomph::IMRByBDF::actions_after_timestep(), oomph::RefineableGmshTetMesh< ELEMENT >::adapt(), oomph::RefineableTetgenMesh< ELEMENT >::adapt(), oomph::RefineableTriangleMesh< ELEMENT >::adapt(), oomph::TreeBasedRefineableMeshBase::adapt_mesh(), oomph::PeriodicOrbitAssemblyHandler< NNODE_1D >::adapt_temporal_mesh(), add_boundary_node(), oomph::UnstructuredTwoDMeshGeometryBase::add_boundary_segment_node(), add_node_pt(), oomph::TriangleMesh< ELEMENT >::add_shared_boundary_node(), oomph::SolidICProblem::backup_original_state(), oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::BrethertonSpineMesh(), oomph::MeshAsGeomObject::build_it(), oomph::ExtrudedCubeMeshFromQuadMesh< ELEMENT >::build_mesh(), check_for_repeated_nodes(), oomph::TriangleScaffoldMesh::check_mesh_integrity(), classify_halo_and_haloed_nodes(), oomph::CollapsibleChannelMesh< ELEMENT >::CollapsibleChannelMesh(), oomph::TreeBasedRefineableMeshBase::complete_hanging_nodes(), oomph::AddedMainNumberingLookup::construct_added_to_main_mapping(), convert_to_boundary_node(), oomph::Problem::copy(), copy_boundary_node_data_from_nodes(), delete_all_external_storage(), distribute(), oomph::FSI_functions::doc_fsi(), doc_mesh_distribution(), oomph::FpPressureAdvectionDiffusionProblem< ELEMENT >::doc_solution(), oomph::EighthSphereMesh< ELEMENT >::EighthSphereMesh(), oomph::FSIDrivenCavityMesh< ELEMENT >::FSIDrivenCavityMesh(), oomph::FullCircleMesh< ELEMENT >::FullCircleMesh(), oomph::Problem::get_dofs(), oomph::Z2ErrorEstimator::get_element_errors(), get_node_reordering(), get_some_non_boundary_node(), oomph::TriangleMesh< ELEMENT >::is_node_on_shared_boundary(), oomph::MacroElementNodeUpdateMesh::node_update(), node_update(), oomph::TreeBasedRefineableMeshBase::p_adapt_mesh(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::pin_all(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::pin_dofs_of_coordinate(), oomph::MGSolver< DIM >::plot(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::project(), prune_halo_elements_and_nodes(), oomph::QuarterTubeMesh< ELEMENT >::QuarterTubeMesh(), read(), oomph::VorticitySmoother< ELEMENT >::recover_vorticity(), oomph::TreeBasedRefineableMeshBase::refine_as_in_reference_mesh(), remove_boundary_node(), reorder_nodes(), oomph::SolidICProblem::reset_original_state(), oomph::FpPressureAdvectionDiffusionProblem< ELEMENT >::reset_pin_status(), oomph::NavierStokesSchurComplementPreconditioner::reset_pin_status(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::restore_positions(), scale_mesh(), oomph::Problem::set_dofs(), oomph::SolidICProblem::set_newmark_initial_condition_consistently(), oomph::Problem::set_pinned_values_to_zero(), oomph::MGSolver< DIM >::set_self_test_vector(), oomph::MGSolver< DIM >::setup_interpolation_matrices_unstructured(), oomph::HelmholtzMGPreconditioner< DIM >::setup_interpolation_matrices_unstructured(), oomph::SolidICProblem::setup_problem(), oomph::SimpleCubicScaffoldTetMesh::SimpleCubicScaffoldTetMesh(), oomph::TetMeshBase::snap_nodes_onto_geometric_objects(), oomph::MGSolver< DIM >::solve(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::store_positions(), oomph::Problem::synchronise_eqn_numbers(), oomph::TubeMesh< ELEMENT >::TubeMesh(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::unpin_all(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::unpin_dofs_of_coordinate(), and oomph::TriangleMesh< ELEMENT >::update_triangulateio().
◆ node_pt() [2/2]
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inline |
◆ node_update()
|
virtual |
Update nodal positions in response to changes in the domain shape. Uses the FiniteElement::get_x(...) function for FiniteElements and doesn't do anything for other element types. If a MacroElement pointer has been set for a FiniteElement, the MacroElement representation is used to update the nodal positions; if not get_x(...) uses the FE interpolation and thus leaves the nodal positions unchanged. Virtual, so it can be overloaded by specific meshes, such as AlgebraicMeshes or SpineMeshes. Generally, this function updates the position of all nodes in response to changes in the boundary position. However, we ignore all SolidNodes since their position is computed as part of the solution – unless the bool flag is set to true. Such calls are typically made when the initial mesh is created and/or after a mesh has been refined repeatedly before the start of the computation.
Update nodal positions in response to changes in the domain shape. Uses the FiniteElement::get_x(...) function for FiniteElements and doesn't do anything for other element types. If a MacroElement pointer has been set for a FiniteElement, the MacroElement representation is used to update the nodal positions; if not get_x(...) uses the FE interpolation and thus leaves the nodal positions unchanged. Virtual, so it can be overloaded by specific meshes, such as AlgebraicMeshes or SpineMeshes. Generally, this function updates the position of all nodes in response to changes in the boundary position. For SolidNodes it only applies the update to those SolidNodes whose position is determined by the boundary position, unless the bool flag is set to true.
Local and global (Eulerian) coordinate
Reimplemented in oomph::AlgebraicRefineableQuarterTubeMesh< ELEMENT >, oomph::MacroElementNodeUpdateRefineableQuarterTubeMesh< ELEMENT >, oomph::AlgebraicRefineableQuarterCircleSectorMesh< ELEMENT >, oomph::MacroElementNodeUpdateRefineableQuarterCircleSectorMesh< ELEMENT >, oomph::AlgebraicRefineableFishMesh< ELEMENT >, oomph::AlgebraicFishMesh< ELEMENT >, oomph::MacroElementNodeUpdateRefineableFishMesh< ELEMENT >, oomph::SpineMesh, oomph::MacroElementNodeUpdateMesh, and oomph::AlgebraicMesh.
Definition at line 287 of file mesh.cc.
References oomph::FiniteElement::dim(), e, element_pt(), External_halo_node_pt, external_halo_node_pt(), get_external_halo_node_pt(), oomph::FiniteElement::get_x(), oomph::Node::hanging_pt(), i, oomph::Node::is_hanging(), oomph::FiniteElement::local_coordinate_of_node(), oomph::HangInfo::master_node_pt(), oomph::HangInfo::master_weight(), oomph::Node::ndim(), nelement(), oomph::HangInfo::nmaster(), oomph::FiniteElement::nnode(), nnode(), oomph::FiniteElement::node_pt(), Node_pt, node_pt(), oomph::oomph_info, s, oomph::TimingHelpers::timer(), and oomph::Node::x().
Referenced by oomph::AlgebraicCollapsibleChannelMesh< ELEMENT >::AlgebraicCollapsibleChannelMesh(), oomph::ChannelWithLeafletMesh< ELEMENT >::ChannelWithLeafletMesh(), oomph::CollapsibleChannelMesh< ELEMENT >::CollapsibleChannelMesh(), oomph::SegregatableFSIProblem::extrapolate_solid_data(), oomph::PseudoElasticChannelWithLeafletMesh< ELEMENT >::PseudoElasticChannelWithLeafletMesh(), oomph::QuarterPipeMesh< ELEMENT >::QuarterPipeMesh(), and oomph::RefineableTwoDAnnularMesh< ELEMENT >::RefineableTwoDAnnularMesh().
◆ nroot_halo_element() [1/2]
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inline |
Total number of root halo elements in this Mesh.
Definition at line 1830 of file mesh.h.
References Root_halo_element_pt.
Referenced by oomph::Multi_domain_functions::aux_setup_multi_domain_interaction(), distribute(), halo_element_pt(), and prune_halo_elements_and_nodes().
◆ nroot_halo_element() [2/2]
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inline |
Number of root halo elements in this Mesh whose non-halo counterpart is held on processor p.
Definition at line 1846 of file mesh.h.
References Root_halo_element_pt.
◆ nroot_haloed_element() [1/2]
|
inline |
Total number of root haloed elements in this Mesh.
Definition at line 1921 of file mesh.h.
References Root_haloed_element_pt.
Referenced by oomph::Multi_domain_functions::aux_setup_multi_domain_interaction(), distribute(), haloed_element_pt(), and prune_halo_elements_and_nodes().
◆ nroot_haloed_element() [2/2]
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inline |
Number of root haloed elements in this Mesh whose non-halo counterpart is held on processor p.
Definition at line 1936 of file mesh.h.
References Root_haloed_element_pt.
◆ nshared_node() [1/2]
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inline |
Total number of shared nodes in this Mesh.
Definition at line 2058 of file mesh.h.
References Shared_node_pt.
Referenced by check_halo_schemes(), classify_halo_and_haloed_nodes(), doc_mesh_distribution(), get_shared_node_pt(), prune_halo_elements_and_nodes(), and synchronise_shared_nodes().
◆ nshared_node() [2/2]
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inline |
Number of shared nodes in this Mesh who have a counterpart on processor p.
Definition at line 2097 of file mesh.h.
References Shared_node_pt.
◆ null_external_halo_node()
| void oomph::Mesh::null_external_halo_node | ( | const unsigned & | p, |
| Node * | nod_pt | ||
| ) |
Null out specified external halo node (used when deleting duplicates)
Definition at line 8569 of file mesh.cc.
References External_halo_node_pt.
Referenced by oomph::Problem::remove_duplicate_data().
◆ operator=()
|
delete |
Broken assignment operator.
◆ output() [1/6]
|
inline |
◆ output() [2/6]
|
inline |
◆ output() [3/6]
| void oomph::Mesh::output | ( | FILE * | file_pt | ) |
Output for all elements (C-style output)
Output function for the mesh class.
Loop over all elements and plot (i.e. execute the element's own output() function) (C style output)
Definition at line 2113 of file mesh.cc.
References e, Element_pt, oomph::GeneralisedElement::is_halo(), oomph::oomph_info, oomph::FiniteElement::output(), and Output_halo_elements.
◆ output() [4/6]
| void oomph::Mesh::output | ( | FILE * | file_pt, |
| const unsigned & | n_plot | ||
| ) |
Output at f(n_plot) points in each element (C-style output)
Output function for the mesh class.
Loop over all elements and plot (i.e. execute the element's own output() function). Use n_plot plot points in each coordinate direction. (C style output)
Definition at line 2156 of file mesh.cc.
References e, Element_pt, oomph::GeneralisedElement::is_halo(), oomph::oomph_info, oomph::FiniteElement::output(), and Output_halo_elements.
◆ output() [5/6]
| void oomph::Mesh::output | ( | std::ostream & | outfile | ) |
Output for all elements.
Output function for the mesh class.
Loop over all elements and plot (i.e. execute the element's own output() function)
Definition at line 2027 of file mesh.cc.
References e, Element_pt, oomph::GeneralisedElement::is_halo(), oomph::oomph_info, oomph::FiniteElement::output(), and Output_halo_elements.
Referenced by oomph::FSI_functions::doc_fsi(), doc_mesh_distribution(), oomph::NonLinearElasticitySmoothMesh< ELEMENT >::doc_solution(), oomph::FpPressureAdvectionDiffusionProblem< ELEMENT >::doc_solution(), output(), oomph::Problem::partition_global_mesh(), oomph::MeshAsGeomObject::position(), oomph::TreeBasedRefineableMeshBase::refine_as_in_reference_mesh(), and oomph::RefineableTetgenMesh< ELEMENT >::snap_nodes_onto_boundary().
◆ output() [6/6]
| void oomph::Mesh::output | ( | std::ostream & | outfile, |
| const unsigned & | n_plot | ||
| ) |
Output at f(n_plot) points in each element.
Output function for the mesh class.
Loop over all elements and plot (i.e. execute the element's own output() function). Use n_plot plot points in each coordinate direction.
Definition at line 2069 of file mesh.cc.
References e, Element_pt, oomph::GeneralisedElement::is_halo(), oomph::oomph_info, oomph::FiniteElement::output(), and Output_halo_elements.
◆ output_boundaries() [1/2]
|
inline |
Output the nodes on the boundaries (into separate tecplot zones). Specify filename.
Definition at line 1009 of file mesh.h.
References output_boundaries().
◆ output_boundaries() [2/2]
| void oomph::Mesh::output_boundaries | ( | std::ostream & | outfile | ) |
Output the nodes on the boundaries (into separate tecplot zones)
Output function for the mesh boundaries.
Loop over all boundaries and dump out the coordinates of the points on the boundary (in individual tecplot zones)
Definition at line 1064 of file mesh.cc.
References Boundary_node_pt, and nboundary().
Referenced by doc_mesh_distribution(), and output_boundaries().
◆ output_external_halo_elements() [1/2]
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inline |
Output all external halo elements with processor p.
Definition at line 2172 of file mesh.h.
References e, External_halo_element_pt, and oomph::FiniteElement::output().
◆ output_external_halo_elements() [2/2]
|
inline |
Output all external halo elements.
Definition at line 2158 of file mesh.h.
References External_halo_element_pt.
Referenced by check_halo_schemes().
◆ output_external_haloed_elements() [1/2]
|
inline |
Output all external haloed elements with processor p.
Definition at line 2204 of file mesh.h.
References e, External_haloed_element_pt, and oomph::FiniteElement::output().
◆ output_external_haloed_elements() [2/2]
|
inline |
Output all external haloed elements.
Definition at line 2190 of file mesh.h.
References External_haloed_element_pt.
Referenced by check_halo_schemes().
◆ output_fct() [1/2]
| void oomph::Mesh::output_fct | ( | std::ostream & | outfile, |
| const unsigned & | n_plot, | ||
| const double & | time, | ||
| FiniteElement::UnsteadyExactSolutionFctPt | exact_soln_pt | ||
| ) |
Output a given time-dep. Vector function at f(n_plot) points in each element.
Output function for the mesh class.
Loop over all elements and plot (i.e. execute the element's own output() function) at time t. Use n_plot plot points in each coordinate direction.
Definition at line 2243 of file mesh.cc.
References e, Element_pt, oomph::GeneralisedElement::is_halo(), oomph::oomph_info, oomph::FiniteElement::output_fct(), and Output_halo_elements.
◆ output_fct() [2/2]
| void oomph::Mesh::output_fct | ( | std::ostream & | outfile, |
| const unsigned & | n_plot, | ||
| FiniteElement::SteadyExactSolutionFctPt | exact_soln_pt | ||
| ) |
Output a given Vector function at f(n_plot) points in each element.
Output function for the mesh class.
Loop over all elements and plot (i.e. execute the element's own output() function). Use n_plot plot points in each coordinate direction.
Definition at line 2199 of file mesh.cc.
References e, Element_pt, oomph::GeneralisedElement::is_halo(), oomph::oomph_info, oomph::FiniteElement::output_fct(), and Output_halo_elements.
Referenced by oomph::FpPressureAdvectionDiffusionProblem< ELEMENT >::doc_solution().
◆ output_fct_paraview() [1/2]
| void oomph::Mesh::output_fct_paraview | ( | std::ofstream & | file_out, |
| const unsigned & | nplot, | ||
| const double & | time, | ||
| FiniteElement::UnsteadyExactSolutionFctPt | exact_soln_pt | ||
| ) | const |
Output in paraview format into specified file. Breaks up each element into sub-elements for plotting purposes. We assume that all elements are of the same type (fct will break break (in paranoid mode) if paraview output fcts of the elements are inconsistent).
Output in paraview format into specified file.
Breaks up each element into sub-elements for plotting purposes. We assume that all elements are of the same type (fct will break (in paranoid mode) if paraview output fcts of the elements are inconsistent).
Definition at line 1759 of file mesh.cc.
References Element_pt, element_pt(), i, oomph::FiniteElement::nplot_points_paraview(), oomph::FiniteElement::nscalar_paraview(), oomph::FiniteElement::nsub_elements_paraview(), oomph::FiniteElement::output_paraview(), oomph::FiniteElement::scalar_name_paraview(), oomph::FiniteElement::scalar_value_fct_paraview(), oomph::FiniteElement::write_paraview_offsets(), oomph::FiniteElement::write_paraview_output_offset_information(), and oomph::FiniteElement::write_paraview_type().
◆ output_fct_paraview() [2/2]
| void oomph::Mesh::output_fct_paraview | ( | std::ofstream & | file_out, |
| const unsigned & | nplot, | ||
| FiniteElement::SteadyExactSolutionFctPt | exact_soln_pt | ||
| ) | const |
Output in paraview format into specified file. Breaks up each element into sub-elements for plotting purposes. We assume that all elements are of the same type (fct will break break (in paranoid mode) if paraview output fcts of the elements are inconsistent).
Output in paraview format into specified file.
Breaks up each element into sub-elements for plotting purposes. We assume that all elements are of the same type (fct will break (in paranoid mode) if paraview output fcts of the elements are inconsistent).
Definition at line 1491 of file mesh.cc.
References Element_pt, element_pt(), i, oomph::FiniteElement::nplot_points_paraview(), oomph::FiniteElement::nscalar_paraview(), oomph::FiniteElement::nsub_elements_paraview(), oomph::FiniteElement::output_paraview(), oomph::FiniteElement::scalar_name_paraview(), oomph::FiniteElement::scalar_value_fct_paraview(), oomph::FiniteElement::write_paraview_offsets(), oomph::FiniteElement::write_paraview_output_offset_information(), and oomph::FiniteElement::write_paraview_type().
◆ output_paraview()
| void oomph::Mesh::output_paraview | ( | std::ofstream & | file_out, |
| const unsigned & | nplot | ||
| ) | const |
Output in paraview format into specified file. Breaks up each element into sub-elements for plotting purposes. We assume that all elements are of the same type (fct will break break (in paranoid mode) if paraview output fcts of the elements are inconsistent).
Output in paraview format into specified file.
Breaks up each element into sub-elements for plotting purposes. We assume that all elements are of the same type (fct will break (in paranoid mode) if paraview output fcts of the elements are inconsistent).
Definition at line 1225 of file mesh.cc.
References Element_pt, element_pt(), i, oomph::FiniteElement::nplot_points_paraview(), oomph::FiniteElement::nscalar_paraview(), oomph::FiniteElement::nsub_elements_paraview(), oomph::FiniteElement::output_paraview(), oomph::FiniteElement::scalar_name_paraview(), oomph::FiniteElement::scalar_value_paraview(), oomph::FiniteElement::write_paraview_offsets(), oomph::FiniteElement::write_paraview_output_offset_information(), and oomph::FiniteElement::write_paraview_type().
◆ prune_dead_nodes()
Prune nodes. Nodes that have been marked as obsolete are removed from the mesh (and its boundary-node scheme). Returns vector of pointers to deleted nodes.
Nodes that have been marked as obsolete are removed from the mesh and the its boundaries. Returns vector of pointers to deleted nodes.
Definition at line 966 of file mesh.cc.
References Boundary_node_pt, nboundary(), nnode(), and Node_pt.
Referenced by oomph::TreeBasedRefineableMeshBase::adapt_mesh(), distribute(), oomph::TreeBasedRefineableMeshBase::p_adapt_mesh(), oomph::PMLCornerQuadMesh< ELEMENT >::PMLCornerQuadMesh(), oomph::PMLQuadMesh< ELEMENT >::PMLQuadMesh(), and prune_halo_elements_and_nodes().
◆ prune_halo_elements_and_nodes() [1/2]
|
inline |
(Irreversibly) prune halo(ed) elements and nodes, usually after another round of refinement, to get rid of excessively wide halo layers. Note that the current mesh will be now regarded as the base mesh and no unrefinement relative to it will be possible once this function has been called.
Definition at line 1667 of file mesh.h.
References oomph::DocInfo::disable_doc().
Referenced by oomph::Problem::load_balance(), and oomph::Problem::prune_halo_elements_and_nodes().
◆ prune_halo_elements_and_nodes() [2/2]
| void oomph::Mesh::prune_halo_elements_and_nodes | ( | Vector< GeneralisedElement * > & | deleted_element_pt, |
| DocInfo & | doc_info, | ||
| const bool & | report_stats | ||
| ) |
(Irreversibly) prune halo(ed) elements and nodes, usually after another round of refinement, to get rid of excessively wide halo layers. Note that the current mesh will be now regarded as the base mesh and no unrefinement relative to it will be possible once this function has been called.
Definition at line 5621 of file mesh.cc.
References add_element_pt(), add_node_pt(), classify_halo_and_haloed_nodes(), Comm_pt, delete_all_external_storage(), oomph::DocInfo::directory(), oomph::Global_timings::Doc_comprehensive_timings, doc_mesh_distribution(), e, finite_element_pt(), flush_element_and_node_storage(), oomph::Tree::flush_object(), oomph::TreeBasedRefineableMeshBase::get_elements_at_refinement_level(), oomph::RefineableElement::get_father_at_refinement_level(), oomph::TreeBasedRefineableMeshBase::get_refinement_levels(), oomph::TreeBasedRefineableMeshBase::get_refinement_pattern(), halo_element_pt(), haloed_element_pt(), oomph::DocInfo::is_doc_enabled(), oomph::GeneralisedElement::is_halo(), oomph::Node::is_obsolete(), oomph::GeneralisedElement::must_be_kept_as_halo(), nelement(), nhalo_node(), nhaloed_node(), oomph::FiniteElement::nnode(), nnode(), oomph::FiniteElement::node_pt(), node_pt(), nroot_halo_element(), nroot_haloed_element(), nshared_node(), oomph::DocInfo::number(), oomph::Tree::object_pt(), oomph::oomph_info, prune_dead_nodes(), oomph::RefineableElement::refinement_level(), reorder_nodes(), Root_halo_element_pt, Root_haloed_element_pt, oomph::Tree::root_pt(), oomph::Node::set_non_obsolete(), oomph::Node::set_obsolete(), setup_boundary_element_info(), oomph::TreeBasedRefineableMeshBase::setup_tree_forest(), oomph::FiniteElement::size(), oomph::Tree::stick_all_tree_nodes_into_vector(), oomph::TimingHelpers::timer(), oomph::RefineableElement::tree_pt(), and oomph::TreeBasedRefineableMeshBase::uniform_refinement_level_when_pruned().
◆ read()
|
virtual |
Read solution from restart file.
Try to cast to elastic node
Reimplemented in oomph::SpineMesh.
Definition at line 1130 of file mesh.cc.
References e, element_pt(), i, oomph::GeneralisedElement::internal_data_pt(), nelement(), oomph::GeneralisedElement::ninternal_data(), nnode(), node_pt(), oomph::Data::read(), oomph::Node::read(), oomph::SolidNode::read(), reorder_nodes(), and oomph::Global_string_for_annotation::string().
Referenced by oomph::SpineMesh::read(), and oomph::Problem::read().
◆ remove_boundary_node()
| void oomph::Mesh::remove_boundary_node | ( | const unsigned & | b, |
| Node *const & | node_pt | ||
| ) |
Remove a node from the boundary b.
Remove the node node_pt from the b-th boundary of the mesh This function also removes the information from the Node itself.
Definition at line 221 of file mesh.cc.
References Boundary_node_pt, node_pt(), and oomph::Node::remove_from_boundary().
Referenced by delete_all_external_storage(), and oomph::Problem::remove_duplicate_data().
◆ remove_boundary_nodes() [1/2]
| void oomph::Mesh::remove_boundary_nodes | ( | ) |
Clear all pointers to boundary nodes.
Remove all information about mesh boundaries.
Definition at line 204 of file mesh.cc.
References Boundary_node_pt.
Referenced by oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::BrethertonSpineMesh(), oomph::ChannelWithLeafletMesh< ELEMENT >::ChannelWithLeafletMesh(), oomph::CollapsibleChannelMesh< ELEMENT >::CollapsibleChannelMesh(), oomph::FSIDrivenCavityMesh< ELEMENT >::FSIDrivenCavityMesh(), and oomph::TriangleMesh< ELEMENT >::remesh_from_internal_triangulateio().
◆ remove_boundary_nodes() [2/2]
| void oomph::Mesh::remove_boundary_nodes | ( | const unsigned & | b | ) |
Remove all information about nodes stored on the b-th boundary of the mesh.
Remove the information about nodes stored on the b-th boundary of the mesh.
Definition at line 188 of file mesh.cc.
References Boundary_node_pt, boundary_node_pt(), and oomph::Node::remove_from_boundary().
◆ remove_null_pointers_from_external_halo_node_storage()
| void oomph::Mesh::remove_null_pointers_from_external_halo_node_storage | ( | ) |
Consolidate external halo node storage by removing nulled out pointes in external halo and haloed schemes.
Definition at line 8589 of file mesh.cc.
References Comm_pt, External_halo_node_pt, and External_haloed_node_pt.
◆ reorder_nodes()
|
virtual |
Re-order nodes in the order in which they appear in elements – can be overloaded for more efficient re-ordering.
Reorder nodes in the order in which they are encountered when stepping through the elements.
Definition at line 508 of file mesh.cc.
References get_node_reordering(), i, nnode(), and node_pt().
Referenced by oomph::TreeBasedRefineableMeshBase::adapt(), oomph::TreeBasedRefineableMeshBase::adapt_mesh(), oomph::TreeBasedRefineableMeshBase::p_adapt(), oomph::TreeBasedRefineableMeshBase::p_adapt_mesh(), prune_halo_elements_and_nodes(), and read().
◆ reset_boundary_element_info()
|
inlinevirtual |
Virtual function to perform the reset boundary elements info rutines.
Reimplemented in oomph::TriangleMesh< ELEMENT >, and oomph::TriangleMeshBase.
◆ resize_halo_nodes()
| void oomph::Mesh::resize_halo_nodes | ( | ) |
Helper function that resizes halo nodes to the same size as their non-halo counterparts if required. (A discrepancy can arise if a FaceElement that introduces additional unknowns are attached to a bulk element that shares a node with a haloed element. In that case the joint node between haloed and non-haloed element is resized on that processor but not on the one that holds the halo counterpart (because no FaceElement is attached to the halo element)
Definition at line 4426 of file mesh.cc.
References Comm_pt, oomph::Global_timings::Doc_comprehensive_timings, external_halo_node_pt(), external_haloed_node_pt(), halo_node_pt(), haloed_node_pt(), i, oomph::BoundaryNodeBase::index_of_first_value_assigned_by_face_element_pt(), is_mesh_distributed(), oomph::Node::ndim(), nexternal_halo_node(), nexternal_haloed_node(), nhalo_node(), nhaloed_node(), oomph::Data::nvalue(), oomph::oomph_info, oomph::Node::position(), oomph::Node::resize(), and oomph::TimingHelpers::timer().
Referenced by classify_halo_and_haloed_nodes(), and oomph::TreeBasedRefineableMeshBase::classify_halo_and_haloed_nodes().
◆ root_halo_element_pt() [1/2]
|
inline |
Vector of pointers to root halo elements in this Mesh whose non-halo counterpart is held on processor p.
Definition at line 1854 of file mesh.h.
References Root_halo_element_pt.
Referenced by halo_element_pt(), and oomph::Problem::setup_base_mesh_info_after_pruning().
◆ root_halo_element_pt() [2/2]
|
inline |
Access fct to the e-th root halo element in this Mesh whose non-halo counterpart is held on processor p.
Definition at line 1862 of file mesh.h.
References e, and Root_halo_element_pt.
◆ root_haloed_element_pt() [1/2]
|
inline |
Vector of pointers to root haloed elements in this Mesh whose non-halo counterpart is held on processor p.
Definition at line 1951 of file mesh.h.
References Root_haloed_element_pt.
Referenced by haloed_element_pt(), and oomph::Problem::setup_base_mesh_info_after_pruning().
◆ root_haloed_element_pt() [2/2]
|
inline |
Access fct to the e-th root haloed element in this Mesh whose non-halo counterpart is held on processor p.
Definition at line 1966 of file mesh.h.
References e, and Root_haloed_element_pt.
◆ scale_mesh()
|
inlinevirtual |
Scale all nodal coordinates by given factor. Virtual so it can be overloaded in SolidMesh class where it also re-assigns the Lagrangian coordinates.
Reimplemented in oomph::SolidMesh.
Definition at line 373 of file mesh.h.
References i, oomph::Node::ndim(), nnode(), node_pt(), and oomph::Node::x().
Referenced by oomph::SolidMesh::scale_mesh().
◆ self_test()
| unsigned oomph::Mesh::self_test | ( | ) |
Self-test: Check elements and nodes. Return 0 for OK.
Definition at line 778 of file mesh.cc.
References check_for_repeated_nodes(), Element_pt, i, Node_pt, and oomph::oomph_info.
Referenced by oomph::RefineableEighthSphereMesh< ELEMENT >::RefineableEighthSphereMesh(), oomph::RefineableFullCircleMesh< ELEMENT >::RefineableFullCircleMesh(), oomph::RefineableQuarterTubeMesh< ELEMENT >::RefineableQuarterTubeMesh(), oomph::RefineableTubeMesh< ELEMENT >::RefineableTubeMesh(), and oomph::AlgebraicMesh::self_test().
◆ set_communicator_pt()
|
inline |
Function to set communicator (mesh is assumed to be distributed if the communicator pointer is non-null). Only defined if mpi is enabled becaus Comm_pt itself is only defined when mpi is enabled.
Definition at line 1615 of file mesh.h.
References Comm_pt.
Referenced by build_face_mesh(), oomph::Problem::distribute(), oomph::QuadFromTriangleMesh< ELEMENT >::QuadFromTriangleMesh(), and oomph::TriangleMesh< ELEMENT >::TriangleMesh().
◆ set_consistent_pinned_values_for_continuation()
| void oomph::Mesh::set_consistent_pinned_values_for_continuation | ( | ContinuationStorageScheme *const & | continuation_stepper_pt | ) |
Set consistent values for pinned data in continuation.
Set the values of auxilliary data used in continuation problems when the data is pinned.
Definition at line 2436 of file mesh.cc.
References e, element_pt(), oomph::GeneralisedElement::internal_data_pt(), nelement(), oomph::GeneralisedElement::ninternal_data(), nnode(), Node_pt, oomph::ContinuationStorageScheme::set_consistent_pinned_positions(), and oomph::ContinuationStorageScheme::set_consistent_pinned_values().
Referenced by oomph::Problem::set_consistent_pinned_values_for_continuation().
◆ set_elemental_internal_time_stepper()
| void oomph::Mesh::set_elemental_internal_time_stepper | ( | TimeStepper *const & | time_stepper_pt, |
| const bool & | preserve_existing_data | ||
| ) |
Set the timestepper associated with the internal data stored within elements in the meah.
Set the time stepper associated with all internal data stored in the elements in the mesh.
Definition at line 2535 of file mesh.cc.
References e, element_pt(), and nelement().
Referenced by set_nodal_and_elemental_time_stepper().
◆ set_external_halo_node_pt()
|
inline |
Set vector of external halo node in this Mesh whose non-halo external counterpart is held on processor p.
Definition at line 2398 of file mesh.h.
References External_halo_node_pt, and external_halo_node_pt().
Referenced by oomph::Problem::remove_null_pointers_from_external_halo_node_storage().
◆ set_external_haloed_node_pt()
|
inline |
Set vector of external haloed node in this Mesh whose halo external counterpart is held on processor p.
Definition at line 2466 of file mesh.h.
References External_haloed_node_pt, and external_haloed_node_pt().
Referenced by oomph::Problem::remove_null_pointers_from_external_halo_node_storage().
◆ set_keep_all_elements_as_halos()
|
inline |
Call this function to keep all the elements as halo elements.
Definition at line 1621 of file mesh.h.
References Keep_all_elements_as_halos.
◆ set_mesh_level_time_stepper()
|
virtual |
Function that can be used to set any additional timestepper data stored at the Mesh (as opposed to nodal and elemental) levels. This is virtual so that it can be overloaded in the appropriate Meshes. Examples include the SpineMeshes and adaptive triangle and tet meshes.
Virtual function that should be overloaded if the mesh has any mesh level storage of the timestepper.
Reimplemented in oomph::TriangleMesh< ELEMENT >, oomph::TetgenMesh< ELEMENT >, and oomph::SpineMesh.
Definition at line 2402 of file mesh.cc.
References Suppress_warning_about_empty_mesh_level_time_stepper_function.
Referenced by oomph::Problem::set_timestepper_for_all_data().
◆ set_nboundary()
|
inline |
Set the number of boundaries in the mesh.
Definition at line 505 of file mesh.h.
References Boundary_coordinate_exists, and Boundary_node_pt.
Referenced by oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::BrethertonSpineMesh(), oomph::GmshTetMesh< ELEMENT >::build_from_scaffold(), oomph::ChannelWithLeafletMesh< ELEMENT >::ChannelWithLeafletMesh(), oomph::CollapsibleChannelMesh< ELEMENT >::CollapsibleChannelMesh(), copy_boundary_node_data_from_nodes(), oomph::GmshTetScaffoldMesh::create_mesh_from_msh_file(), oomph::EighthSphereMesh< ELEMENT >::EighthSphereMesh(), oomph::FSIDrivenCavityMesh< ELEMENT >::FSIDrivenCavityMesh(), oomph::FullCircleMesh< ELEMENT >::FullCircleMesh(), oomph::GeompackQuadScaffoldMesh::GeompackQuadScaffoldMesh(), oomph::QuarterCircleSectorMesh< ELEMENT >::QuarterCircleSectorMesh(), oomph::QuarterTubeMesh< ELEMENT >::QuarterTubeMesh(), oomph::RectangleWithHoleMesh< ELEMENT >::RectangleWithHoleMesh(), oomph::SimpleCubicScaffoldTetMesh::SimpleCubicScaffoldTetMesh(), oomph::SimpleRectangularTriMesh< ELEMENT >::SimpleRectangularTriMesh(), oomph::TetgenScaffoldMesh::TetgenScaffoldMesh(), oomph::ThinLayerBrickOnTetMesh< ELEMENT >::ThinLayerBrickOnTetMesh(), oomph::TriangleScaffoldMesh::TriangleScaffoldMesh(), and oomph::TubeMesh< ELEMENT >::TubeMesh().
◆ set_nodal_and_elemental_time_stepper()
|
inline |
Set the timestepper associated with all nodal and elemental data stored in the mesh.
Definition at line 1032 of file mesh.h.
References set_elemental_internal_time_stepper(), and set_nodal_time_stepper().
Referenced by oomph::RefineableTriangleMesh< ELEMENT >::adapt(), and oomph::Problem::set_timestepper_for_all_data().
◆ set_nodal_time_stepper()
| void oomph::Mesh::set_nodal_time_stepper | ( | TimeStepper *const & | time_stepper_pt, |
| const bool & | preserve_existing_data | ||
| ) |
Set the timestepper associated with the nodal data in the mesh.
Set the time stepper associated with all the nodal data in the problem.
Definition at line 2516 of file mesh.cc.
References nnode(), and Node_pt.
Referenced by set_nodal_and_elemental_time_stepper().
◆ setup_boundary_element_info() [1/2]
|
inlinevirtual |
Interface for function that is used to setup the boundary information (Empty virtual function – implement this for specific Mesh classes)
Reimplemented in oomph::HermiteQuadMesh< ELEMENT >, oomph::TriangleMeshBase, oomph::TetMeshBase, oomph::QuadMeshBase, oomph::LineMeshBase, and oomph::BrickMeshBase.
Definition at line 275 of file mesh.h.
Referenced by oomph::TreeBasedRefineableMeshBase::adapt_mesh(), oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::BrethertonSpineMesh(), distribute(), oomph::TreeBasedRefineableMeshBase::p_adapt_mesh(), prune_halo_elements_and_nodes(), oomph::RefineableRectangleWithHoleAndAnnularRegionMesh< ELEMENT >::RefineableRectangleWithHoleAndAnnularRegionMesh(), and oomph::RefineableRectangleWithHoleMesh< ELEMENT >::RefineableRectangleWithHoleMesh().
◆ setup_boundary_element_info() [2/2]
|
inlinevirtual |
Setup lookup schemes which establish whic elements are located next to mesh's boundaries. Doc in outfile (if it's open). (Empty virtual function – implement this for specific Mesh classes)
Reimplemented in oomph::HermiteQuadMesh< ELEMENT >, oomph::TriangleMeshBase, oomph::TetMeshBase, oomph::QuadMeshBase, oomph::LineMeshBase, and oomph::BrickMeshBase.
◆ setup_shared_node_scheme()
|
protected |
Setup shared node scheme.
Setup shared node scheme: Shared node lookup scheme contains a unique correspondence between all nodes on the halo/haloed elements between two processors.
Definition at line 2712 of file mesh.cc.
References add_shared_node_pt(), Comm_pt, oomph::Global_timings::Doc_comprehensive_timings, e, halo_element_pt(), haloed_element_pt(), oomph::FiniteElement::nnode(), oomph::FiniteElement::node_pt(), oomph::oomph_info, Shared_node_pt, oomph::OomphInfo::stream_pt(), and oomph::TimingHelpers::timer().
Referenced by classify_halo_and_haloed_nodes().
◆ shared_node_pt()
|
inline |
Access fct to the j-th shared node in this Mesh who has a counterpart on processor p.
Definition at line 2110 of file mesh.h.
References Shared_node_pt.
Referenced by oomph::Missing_masters_functions::add_external_halo_master_node_helper(), oomph::Missing_masters_functions::add_external_halo_node_helper(), check_halo_schemes(), classify_halo_and_haloed_nodes(), doc_mesh_distribution(), get_shared_node_pt(), and oomph::TreeBasedRefineableMeshBase::synchronise_hanging_nodes().
◆ shift_time_values()
| void oomph::Mesh::shift_time_values | ( | ) |
Shift time-dependent data along for next timestep: Deal with nodal Data/positions and the element's internal Data.
Shift time-dependent data along for next timestep: Again this is achieved by looping over all data and calling the functions defined in each data object's timestepper.
Definition at line 2326 of file mesh.cc.
References e, element_pt(), nelement(), nnode(), and Node_pt.
Referenced by oomph::Problem::shift_time_values().
◆ synchronise_shared_nodes()
| void oomph::Mesh::synchronise_shared_nodes | ( | const bool & | report_stats | ) |
Synchronise shared node lookup schemes to cater for the the case where: (1) a certain node on the current processor is halo with proc p (i.e. its non-halo counterpart lives on processor p) (2) that node is also exists (also as a halo) on another processor (q, say) where its non-halo counter part is also known to be on processor p. However, without calling this function the current processor does not necessarily know that it shares a node with processor q. This information can be required, e.g. when synchronising hanging node schemes over all processors.
Synchronise shared node lookup schemes to cater for the the case where: (1) a certain node on the current processor is halo with proc p (i.e. its non-halo counterpart lives on processor p) (2) that node also exists (also as a halo) on another processor (q, say) where its non-halo counter part is also known to be on processor p. However, without calling this function the current processor does not necessarily know that it shares a node with processor q. This information can be required, e.g. when synchronising hanging node schemes over all processors.
Definition at line 2890 of file mesh.cc.
References add_shared_node_pt(), Comm_pt, oomph::Global_timings::Doc_comprehensive_timings, halo_node_pt(), haloed_node_pt(), i, nhalo_node(), nhaloed_node(), nshared_node(), oomph::oomph_info, Shared_node_pt, and oomph::TimingHelpers::timer().
Referenced by classify_halo_and_haloed_nodes().
◆ total_size()
|
inline |
Determine the sum of all "sizes" of the FiniteElements in the mesh (non-FiniteElements are ignored). This gives the length/area/volume occupied by the mesh.
Definition at line 708 of file mesh.h.
References e, finite_element_pt(), nelement(), and oomph::FiniteElement::size().
◆ try_to_add_haloed_node_pt()
|
inlinevirtual |
Reimplemented in oomph::RefineableTriangleMesh< ELEMENT >.
◆ try_to_add_root_haloed_element_pt()
|
inlinevirtual |
Reimplemented in oomph::RefineableTriangleMesh< ELEMENT >.
◆ unset_keep_all_elements_as_halos()
|
inline |
Calll this function to unset the flag that keeps all elements in the mesh as halo elements.
Definition at line 1628 of file mesh.h.
References Keep_all_elements_as_halos.
Friends And Related Function Documentation
◆ Problem
Member Data Documentation
◆ Boundary_coordinate_exists
|
protected |
Vector of boolean data that indicates whether the boundary coordinates have been set for the boundary.
Definition at line 190 of file mesh.h.
Referenced by boundary_coordinate_exists(), oomph::ChannelWithLeafletMesh< ELEMENT >::ChannelWithLeafletMesh(), oomph::CollapsibleChannelMesh< ELEMENT >::CollapsibleChannelMesh(), doc_boundary_coordinates(), oomph::TriangleMeshBase::dump_triangulateio(), oomph::ElasticRefineableRectangularQuadMesh< ELEMENT >::ElasticRefineableRectangularQuadMesh(), oomph::FSIDrivenCavityMesh< ELEMENT >::FSIDrivenCavityMesh(), oomph::FullCircleMesh< ELEMENT >::FullCircleMesh(), oomph::QuarterCircleSectorMesh< ELEMENT >::QuarterCircleSectorMesh(), oomph::QuarterPipeMesh< ELEMENT >::QuarterPipeMesh(), oomph::QuarterTubeMesh< ELEMENT >::QuarterTubeMesh(), oomph::TriangleMesh< ELEMENT >::remesh_from_internal_triangulateio(), oomph::TriangleMeshBase::remesh_from_triangulateio(), set_nboundary(), oomph::TetMeshBase::setup_boundary_coordinates(), oomph::UnstructuredTwoDMeshGeometryBase::setup_boundary_coordinates(), oomph::TetMeshBase::snap_nodes_onto_geometric_objects(), oomph::ThinLayerBrickOnTetMesh< ELEMENT >::ThinLayerBrickOnTetMesh(), and oomph::TubeMesh< ELEMENT >::TubeMesh().
◆ Boundary_element_pt
|
protected |
Vector of Vector of pointers to elements on the boundaries: Boundary_element_pt(b,e)
Definition at line 91 of file mesh.h.
Referenced by boundary_element_pt(), oomph::GmshTetMesh< ELEMENT >::build_from_scaffold(), nboundary_element(), oomph::TriangleMesh< ELEMENT >::remesh_from_internal_triangulateio(), oomph::BrickMeshBase::setup_boundary_element_info(), oomph::LineMeshBase::setup_boundary_element_info(), oomph::QuadMeshBase::setup_boundary_element_info(), oomph::TetMeshBase::setup_boundary_element_info(), oomph::TriangleMeshBase::setup_boundary_element_info(), and oomph::ThinLayerBrickOnTetMesh< ELEMENT >::ThinLayerBrickOnTetMesh().
◆ Boundary_node_pt
Vector of Vector of pointers to nodes on the boundaries: Boundary_node_pt(b,n). Note that this is private to force the use of the add_boundary_node() function, which ensures that the reverse look-up schemes for the nodes are set up.
Definition at line 83 of file mesh.h.
Referenced by add_boundary_node(), boundary_node_pt(), copy_boundary_node_data_from_nodes(), merge_meshes(), nboundary(), nboundary_node(), output_boundaries(), prune_dead_nodes(), remove_boundary_node(), remove_boundary_nodes(), and set_nboundary().
◆ Comm_pt
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Pointer to communicator – set to NULL if mesh is not distributed.
Definition at line 119 of file mesh.h.
Referenced by oomph::TreeBasedRefineableMeshBase::adapt(), check_halo_schemes(), classify_halo_and_haloed_nodes(), oomph::TreeBasedRefineableMeshBase::classify_halo_and_haloed_nodes(), communicator_pt(), delete_all_external_storage(), distribute(), doc_mesh_distribution(), elemental_dimension(), get_efficiency_of_mesh_distribution(), get_halo_node_stats(), get_haloed_node_stats(), Mesh(), ndof_types(), nodal_dimension(), oomph::TreeBasedRefineableMeshBase::p_adapt(), prune_halo_elements_and_nodes(), oomph::TreeBasedRefineableMeshBase::refine_base_mesh(), remove_null_pointers_from_external_halo_node_storage(), resize_halo_nodes(), set_communicator_pt(), oomph::LineMeshBase::setup_boundary_element_info(), oomph::RefineableBrickMesh< ELEMENT >::setup_octree_forest(), oomph::RefineableQuadMesh< ELEMENT >::setup_quadtree_forest(), setup_shared_node_scheme(), oomph::SolidMesh::SolidMesh(), oomph::TreeBasedRefineableMeshBase::synchronise_hanging_nodes(), oomph::TreeBasedRefineableMeshBase::synchronise_nonhanging_nodes(), and synchronise_shared_nodes().
◆ Default_TimeStepper
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Default Steady Timestepper, to be used in default arguments to Mesh constructors.
The Steady Timestepper.
Definition at line 75 of file mesh.h.
Referenced by oomph::PeriodicOrbitAssemblyHandler< NNODE_1D >::adapt_temporal_mesh(), and oomph::WomersleyImpedanceTubeBase< ELEMENT, DIM >::setup().
◆ Element_pt
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Vector of pointers to generalised elements.
Definition at line 186 of file mesh.h.
Referenced by oomph::TreeBasedRefineableMeshBase::adapt_mesh(), add_element_pt(), assign_global_eqn_numbers(), assign_local_eqn_numbers(), oomph::BackupMeshForProjection< GEOMETRIC_ELEMENT >::BackupMeshForProjection(), oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::BrethertonSpineMesh(), oomph::GmshTetMesh< ELEMENT >::build_from_scaffold(), compute_error(), compute_norm(), convert_to_boundary_node(), oomph::GmshTetScaffoldMesh::create_mesh_from_msh_file(), describe_dofs(), describe_local_dofs(), oomph::EighthSphereMesh< ELEMENT >::EighthSphereMesh(), oomph::SolidMesh::element_node_pt(), oomph::SpineMesh::element_node_pt(), element_pt(), finite_element_pt(), flush_element_storage(), oomph::FullCircleMesh< ELEMENT >::FullCircleMesh(), oomph::GeompackQuadScaffoldMesh::GeompackQuadScaffoldMesh(), merge_meshes(), nelement(), output(), output_fct(), output_fct_paraview(), output_paraview(), oomph::QuarterCircleSectorMesh< ELEMENT >::QuarterCircleSectorMesh(), oomph::QuarterTubeMesh< ELEMENT >::QuarterTubeMesh(), oomph::RectangleWithHoleMesh< ELEMENT >::RectangleWithHoleMesh(), oomph::TriangleMesh< ELEMENT >::remesh_from_internal_triangulateio(), self_test(), oomph::SimpleCubicScaffoldTetMesh::SimpleCubicScaffoldTetMesh(), oomph::SimpleRectangularTriMesh< ELEMENT >::SimpleRectangularTriMesh(), oomph::TetMeshBase::split_elements_in_corners(), oomph::TetgenScaffoldMesh::TetgenScaffoldMesh(), oomph::ThinLayerBrickOnTetMesh< ELEMENT >::ThinLayerBrickOnTetMesh(), oomph::TriangleScaffoldMesh::TriangleScaffoldMesh(), oomph::TubeMesh< ELEMENT >::TubeMesh(), and ~Mesh().
◆ External_halo_element_pt
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External halo(ed) elements are created as and when they are needed to act as source elements for the particular process's mesh. The storage is wiped and rebuilt every time the mesh is refined.
Map of vectors holding the pointers to the external halo elements
Definition at line 126 of file mesh.h.
Referenced by add_external_halo_element_pt(), check_halo_schemes(), delete_all_external_storage(), external_halo_element_pt(), get_all_halo_data(), nexternal_halo_element(), output_external_halo_elements(), and oomph::TriangleMesh< ELEMENT >::remesh_from_internal_triangulateio().
◆ External_halo_node_pt
Map of vectors holding the pointers to the external halo nodes.
Definition at line 135 of file mesh.h.
Referenced by add_external_halo_node_pt(), delete_all_external_storage(), external_halo_node_pt(), external_halo_proc(), get_all_halo_data(), get_external_halo_node_pt(), nexternal_halo_node(), oomph::AlgebraicMesh::node_update(), oomph::MacroElementNodeUpdateMesh::node_update(), node_update(), null_external_halo_node(), oomph::TriangleMesh< ELEMENT >::remesh_from_internal_triangulateio(), remove_null_pointers_from_external_halo_node_storage(), and set_external_halo_node_pt().
◆ External_haloed_element_pt
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Map of vectors holding the pointers to the external haloed elements.
Definition at line 129 of file mesh.h.
Referenced by add_external_haloed_element_pt(), check_halo_schemes(), delete_all_external_storage(), external_haloed_element_pt(), nexternal_haloed_element(), output_external_haloed_elements(), and oomph::TriangleMesh< ELEMENT >::remesh_from_internal_triangulateio().
◆ External_haloed_node_pt
Map of vectors holding the pointers to the external haloed nodes.
Definition at line 138 of file mesh.h.
Referenced by add_external_haloed_node_pt(), delete_all_external_storage(), external_haloed_node_pt(), nexternal_haloed_node(), oomph::TriangleMesh< ELEMENT >::remesh_from_internal_triangulateio(), remove_null_pointers_from_external_halo_node_storage(), and set_external_haloed_node_pt().
◆ Face_index_at_boundary
For the e-th finite element on boundary b, this is the index of the face that lies along that boundary.
Definition at line 95 of file mesh.h.
Referenced by oomph::GmshTetMesh< ELEMENT >::build_from_scaffold(), face_index_at_boundary(), oomph::TriangleMesh< ELEMENT >::remesh_from_internal_triangulateio(), oomph::BrickMeshBase::setup_boundary_element_info(), oomph::LineMeshBase::setup_boundary_element_info(), oomph::QuadMeshBase::setup_boundary_element_info(), oomph::TetMeshBase::setup_boundary_element_info(), oomph::TriangleMeshBase::setup_boundary_element_info(), and oomph::ThinLayerBrickOnTetMesh< ELEMENT >::ThinLayerBrickOnTetMesh().
◆ Halo_node_pt
Map of vectors holding the pointers to the halo nodes.
Definition at line 106 of file mesh.h.
Referenced by add_halo_node_pt(), classify_halo_and_haloed_nodes(), get_all_halo_data(), halo_node_pt(), nhalo_node(), and oomph::TriangleMesh< ELEMENT >::remesh_from_internal_triangulateio().
◆ Haloed_node_pt
Map of vectors holding the pointers to the haloed nodes.
Definition at line 109 of file mesh.h.
Referenced by add_haloed_node_pt(), classify_halo_and_haloed_nodes(), haloed_node_pt(), nhaloed_node(), and oomph::TriangleMesh< ELEMENT >::remesh_from_internal_triangulateio().
◆ Keep_all_elements_as_halos
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bool to indicate whether to keep all elements in a mesh as halos or not
Definition at line 141 of file mesh.h.
Referenced by distribute(), Mesh(), set_keep_all_elements_as_halos(), and unset_keep_all_elements_as_halos().
◆ Lookup_for_elements_next_boundary_is_setup
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Flag to indicate that the lookup schemes for elements that are adjacent to the boundaries has been set up.
Definition at line 87 of file mesh.h.
Referenced by oomph::TreeBasedRefineableMeshBase::adapt_mesh(), boundary_element_pt(), oomph::GmshTetMesh< ELEMENT >::build_from_scaffold(), doc_mesh_distribution(), face_index_at_boundary(), merge_meshes(), Mesh(), nboundary_element(), oomph::TreeBasedRefineableMeshBase::p_adapt_mesh(), oomph::BrickMeshBase::setup_boundary_element_info(), oomph::LineMeshBase::setup_boundary_element_info(), oomph::QuadMeshBase::setup_boundary_element_info(), oomph::TetMeshBase::setup_boundary_element_info(), oomph::TriangleMeshBase::setup_boundary_element_info(), oomph::TetMeshBase::split_elements_in_corners(), and oomph::ThinLayerBrickOnTetMesh< ELEMENT >::ThinLayerBrickOnTetMesh().
◆ Node_pt
Vector of pointers to nodes.
Definition at line 183 of file mesh.h.
Referenced by add_node_pt(), assign_global_eqn_numbers(), assign_initial_values_impulsive(), oomph::BackupMeshForProjection< GEOMETRIC_ELEMENT >::BackupMeshForProjection(), oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::BrethertonSpineMesh(), oomph::GmshTetMesh< ELEMENT >::build_from_scaffold(), calculate_predictions(), oomph::TriangleScaffoldMesh::check_mesh_integrity(), convert_to_boundary_node(), oomph::GmshTetScaffoldMesh::create_mesh_from_msh_file(), delete_all_external_storage(), describe_dofs(), does_pointer_correspond_to_mesh_data(), oomph::EighthSphereMesh< ELEMENT >::EighthSphereMesh(), flush_node_storage(), oomph::FullCircleMesh< ELEMENT >::FullCircleMesh(), oomph::GeompackQuadScaffoldMesh::GeompackQuadScaffoldMesh(), merge_meshes(), nnode(), oomph::AlgebraicMesh::node_pt(), node_pt(), oomph::SolidMesh::node_pt(), oomph::SpineMesh::node_pt(), node_update(), oomph::SpineMesh::node_update(), prune_dead_nodes(), oomph::QuarterCircleSectorMesh< ELEMENT >::QuarterCircleSectorMesh(), oomph::QuarterTubeMesh< ELEMENT >::QuarterTubeMesh(), oomph::RectangleWithHoleMesh< ELEMENT >::RectangleWithHoleMesh(), oomph::TriangleMesh< ELEMENT >::remesh_from_internal_triangulateio(), self_test(), set_consistent_pinned_values_for_continuation(), oomph::SolidMesh::set_lagrangian_nodal_coordinates(), set_nodal_time_stepper(), shift_time_values(), oomph::SimpleCubicScaffoldTetMesh::SimpleCubicScaffoldTetMesh(), oomph::SimpleRectangularTriMesh< ELEMENT >::SimpleRectangularTriMesh(), oomph::TetgenScaffoldMesh::TetgenScaffoldMesh(), oomph::ThinLayerBrickOnTetMesh< ELEMENT >::ThinLayerBrickOnTetMesh(), oomph::TriangleScaffoldMesh::TriangleScaffoldMesh(), oomph::TubeMesh< ELEMENT >::TubeMesh(), oomph::WomersleyMesh< WOMERSLEY_ELEMENT >::WomersleyMesh(), and ~Mesh().
◆ Output_halo_elements
| bool oomph::Mesh::Output_halo_elements |
Bool for output of halo elements.
Definition at line 2027 of file mesh.h.
Referenced by disable_output_of_halo_elements(), enable_output_of_halo_elements(), Mesh(), output(), and output_fct().
◆ Resize_halo_nodes_not_required
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Set this to true to suppress resizing of halo nodes (at your own risk!)
Definition at line 144 of file mesh.h.
Referenced by classify_halo_and_haloed_nodes(), oomph::TreeBasedRefineableMeshBase::classify_halo_and_haloed_nodes(), disable_resizing_of_halo_nodes(), enable_resizing_of_halo_nodes(), and Mesh().
◆ Root_halo_element_pt
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Map of vectors holding the pointers to the root halo elements.
Definition at line 100 of file mesh.h.
Referenced by add_root_halo_element_pt(), classify_halo_and_haloed_nodes(), get_all_halo_data(), nroot_halo_element(), prune_halo_elements_and_nodes(), oomph::TriangleMesh< ELEMENT >::remesh_from_internal_triangulateio(), and root_halo_element_pt().
◆ Root_haloed_element_pt
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Map of vectors holding the pointers to the root haloed elements.
Definition at line 103 of file mesh.h.
Referenced by add_root_haloed_element_pt(), classify_halo_and_haloed_nodes(), nroot_haloed_element(), prune_halo_elements_and_nodes(), oomph::TriangleMesh< ELEMENT >::remesh_from_internal_triangulateio(), and root_haloed_element_pt().
◆ Shared_node_pt
Map of vectors holding the pointers to the shared nodes. These are all the nodes that are on two "neighbouring" processes (the halo(ed) lookup scheme depends upon which processor is in charge.
- a node which is on 3 processors, for example, will not feature in the halo(ed) lookup scheme between the two lowest-numbered processors)
Definition at line 116 of file mesh.h.
Referenced by add_shared_node_pt(), check_halo_schemes(), doc_shared_nodes(), get_shared_node_pt(), nshared_node(), setup_shared_node_scheme(), shared_node_pt(), oomph::TreeBasedRefineableMeshBase::synchronise_hanging_nodes(), and synchronise_shared_nodes().
◆ Suppress_warning_about_empty_mesh_level_time_stepper_function
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Boolean used to control warning about empty mesh level timestepper function.
Static boolean flag to control warning about mesh level timesteppers.
Definition at line 233 of file mesh.h.
Referenced by set_mesh_level_time_stepper().
The documentation for this class was generated from the following files: