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) | |
| Broken copy constructor. More... | |
| void | operator= (const Mesh &) |
| 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) |
| 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 () |
| 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. 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 (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) |
| 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_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 (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... | |
| bool | is_mesh_distributed () const |
| Boolean to indicate if Mesh has been distributed. More... | |
| OomphCommunicator * | communicator_pt () const |
| void | set_communicator_pt (OomphCommunicator *comm_pt) |
| 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) |
| 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 =false |
| 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) |
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 |
| 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 |
| OomphCommunicator * | Comm_pt |
| Pointer to communicator – set to NULL if mesh is not distributed. More... | |
| std::map< unsigned, Vector< GeneralisedElement * > > | External_halo_element_pt |
| Map of vectors holding the pointers to the external halo elements. 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 249 of file mesh.h.
References Output_halo_elements.
Referenced by oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::reposition_spines().
◆ 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 270 of file mesh.h.
References merge_meshes().
◆ Mesh() [3/3]
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inline |
Broken copy constructor.
Definition at line 402 of file mesh.h.
References oomph::BrokenCopy::broken_copy().
◆ ~Mesh()
|
virtual |
Virtual Destructor to clean up all memory.
Definition at line 588 of file mesh.cc.
References delete_all_external_storage(), Element_pt, i, and Node_pt.
Referenced by operator=().
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 246 of file mesh.cc.
References oomph::Node::add_to_boundary(), and Boundary_node_pt.
Referenced by oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::BrethertonSpineMesh(), oomph::RefineableQElement< 3 >::build(), oomph::RefineableQElement< 2 >::build(), oomph::FishMesh< ELEMENT >::build_mesh(), oomph::TwoLayerSpineMesh< ELEMENT >::build_two_layer_mesh(), oomph::ChannelWithLeafletMesh< ELEMENT >::ChannelWithLeafletMesh(), oomph::CollapsibleChannelMesh< ELEMENT >::CollapsibleChannelMesh(), oomph::Missing_masters_functions::construct_new_external_halo_master_node_helper(), oomph::Multi_domain_functions::construct_new_external_halo_master_node_helper(), oomph::Missing_masters_functions::construct_new_external_halo_node_helper(), oomph::Multi_domain_functions::construct_new_external_halo_node_helper(), 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::RefineableQSpectralElement< 3 >::rebuild_from_sons(), oomph::RefineableQSpectralElement< 2 >::rebuild_from_sons(), oomph::PRefineableQElement< 2, INITIAL_NNODE_1D >::rebuild_from_sons(), oomph::PRefineableQElement< 3, INITIAL_NNODE_1D >::rebuild_from_sons(), oomph::RectangleWithHoleMesh< ELEMENT >::RectangleWithHoleMesh(), set_nboundary(), 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 605 of file mesh.h.
References get_node_reordering(), node_update(), and reorder_nodes().
Referenced by build_face_mesh(), oomph::RefineableTriangleMesh< ELEMENT >::create_sorted_face_mesh_representation(), distribute(), and prune_halo_elements_and_nodes().
◆ 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 1910 of file mesh.h.
References oomph::GeneralisedElement::set_halo().
Referenced by oomph::Missing_masters_functions::construct_new_external_halo_master_node_helper(), and oomph::Multi_domain_functions::construct_new_external_halo_master_node_helper().
◆ 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 2016 of file mesh.h.
References oomph::Data::set_halo().
Referenced by oomph::Missing_masters_functions::construct_new_external_halo_master_node_helper(), oomph::Multi_domain_functions::construct_new_external_halo_master_node_helper(), oomph::Missing_masters_functions::construct_new_external_halo_node_helper(), and oomph::Multi_domain_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 9087 of file mesh.cc.
References External_haloed_element_pt, and nexternal_haloed_element().
Referenced by external_haloed_element_pt(), 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 9128 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(), oomph::Multi_domain_functions::add_external_haloed_node_helper(), and external_haloed_node_pt().
◆ 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 1569 of file mesh.h.
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 1680 of file mesh.h.
Referenced by classify_halo_and_haloed_nodes().
◆ add_node_pt()
|
inline |
Add a (pointer to a) node to the mesh.
Definition at line 602 of file mesh.h.
Referenced by oomph::RefineableQElement< 3 >::build(), oomph::RefineableQElement< 1 >::build(), oomph::RefineableQElement< 2 >::build(), build_face_mesh(), oomph::ChannelWithLeafletMesh< ELEMENT >::ChannelWithLeafletMesh(), 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::RefineableQSpectralElement< 3 >::rebuild_from_sons(), oomph::RefineableQSpectralElement< 2 >::rebuild_from_sons(), oomph::RefineableQSpectralElement< 1 >::rebuild_from_sons(), oomph::PRefineableQElement< 1, INITIAL_NNODE_1D >::rebuild_from_sons(), oomph::PRefineableQElement< 2, INITIAL_NNODE_1D >::rebuild_from_sons(), and oomph::PRefineableQElement< 3, INITIAL_NNODE_1D >::rebuild_from_sons().
◆ 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 1535 of file mesh.h.
References 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 1638 of file mesh.h.
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 1789 of file mesh.h.
References get_halo_node_stats(), and get_haloed_node_stats().
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 614 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 2023 of file mesh.cc.
References e, element_pt(), nelement(), nnode(), and Node_pt.
Referenced by oomph::Problem::assign_initial_values_impulsive(), and output_boundaries().
◆ 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 702 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 i.
Referenced by oomph::RefineableQElement< 3 >::build(), oomph::RefineableQElement< 2 >::build(), oomph::FishMesh< ELEMENT >::build_mesh(), oomph::TwoLayerSpineMesh< ELEMENT >::build_two_layer_mesh(), oomph::PRefineableQElement< 2, INITIAL_NNODE_1D >::p_refine(), oomph::PRefineableQElement< 3, INITIAL_NNODE_1D >::p_refine(), oomph::RefineableQSpectralElement< 3 >::rebuild_from_sons(), oomph::RefineableQSpectralElement< 2 >::rebuild_from_sons(), oomph::PRefineableQElement< 2, INITIAL_NNODE_1D >::rebuild_from_sons(), and oomph::PRefineableQElement< 3, INITIAL_NNODE_1D >::rebuild_from_sons().
◆ boundary_element_pt()
|
inline |
Return pointer to e-th finite element on boundary b.
Definition at line 814 of file mesh.h.
References e.
Referenced by oomph::RefineableTetgenMesh< ELEMENT >::adapt(), oomph::RefineableGmshTetMesh< ELEMENT >::adapt(), oomph::RefineableTriangleMesh< ELEMENT >::adapt(), oomph::TreeBasedRefineableMeshBase::adapt_mesh(), build_face_mesh(), doc_boundary_coordinates(), doc_mesh_distribution(), oomph::TreeBasedRefineableMeshBase::p_adapt_mesh(), oomph::RefineableTriangleMesh< ELEMENT >::snap_nodes_onto_boundary(), and oomph::ThinLayerBrickOnTetMesh< ELEMENT >::ThinLayerBrickOnTetMesh().
◆ boundary_node_pt() [1/2]
|
inline |
Return pointer to node n on boundary b.
Definition at line 497 of file mesh.h.
Referenced by oomph::RefineableTetgenMesh< ELEMENT >::adapt(), oomph::RefineableGmshTetMesh< ELEMENT >::adapt(), oomph::RefineableTriangleMesh< ELEMENT >::adapt(), oomph::SolidMesh::boundary_node_pt(), oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::BrethertonSpineMesh(), build_face_mesh(), oomph::FishMesh< ELEMENT >::build_mesh(), oomph::TwoLayerSpineMesh< ELEMENT >::build_two_layer_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::QuarterPipeMesh< ELEMENT >::QuarterPipeMesh(), oomph::TriangleMeshBase::remesh_from_triangulateio(), remove_boundary_nodes(), oomph::ElasticRectangularQuadMesh< ELEMENT >::set_boundary_coordinates(), oomph::RefineableTriangleMesh< ELEMENT >::snap_nodes_onto_boundary(), oomph::TetMeshBase::snap_nodes_onto_geometric_objects(), and oomph::ThinLayerBrickOnTetMesh< ELEMENT >::ThinLayerBrickOnTetMesh().
◆ boundary_node_pt() [2/2]
|
inline |
◆ build_face_mesh()
|
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 639 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(), self_test(), 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 2098 of file mesh.cc.
References e, element_pt(), nelement(), nnode(), and Node_pt.
Referenced by oomph::Problem::calculate_predictions(), and output_boundaries().
◆ check_for_repeated_nodes()
|
inline |
Check for repeated nodes within a given spatial tolerance. Return (0/1) for (pass/fail).
Definition at line 737 of file mesh.h.
References i, oomph::Data::is_a_copy(), oomph::Node::ndim(), nnode(), node_pt(), oomph::oomph_info, prune_dead_nodes(), 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 6551 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(), and prune_halo_elements_and_nodes().
◆ check_inverted_elements() [1/2]
| 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).
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 802 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 total_size().
◆ check_inverted_elements() [2/2]
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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 727 of file mesh.h.
References check_inverted_elements().
◆ classify_halo_and_haloed_nodes() [1/2]
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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 2984 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::Data::is_halo(), oomph::GeneralisedElement::is_halo(), nelement(), nhalo_node(), nhaloed_node(), oomph::GeneralisedElement::ninternal_data(), nnode(), oomph::FiniteElement::nnode(), node_pt(), oomph::FiniteElement::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 oomph::TreeBasedRefineableMeshBase::classify_halo_and_haloed_nodes(), classify_halo_and_haloed_nodes(), distribute(), and prune_halo_elements_and_nodes().
◆ classify_halo_and_haloed_nodes() [2/2]
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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 1379 of file mesh.h.
References classify_halo_and_haloed_nodes(), oomph::DocInfo::disable_doc(), get_all_halo_data(), and synchronise_shared_nodes().
◆ communicator_pt()
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inline |
Read-only access fct to communicator (Null if mesh is not distributed, i.e. if we don't have mpi).
Definition at line 1278 of file mesh.h.
References Comm_pt.
Referenced by build_face_mesh(), oomph::Z2ErrorEstimator::doc_flux(), oomph::Z2ErrorEstimator::get_element_errors(), oomph::Missing_masters_functions::get_required_master_nodal_information_helper(), and is_mesh_distributed().
◆ compute_error() [1/4]
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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 1057 of file mesh.h.
References oomph::FiniteElement::compute_error(), e, and oomph::GeneralisedElement::is_halo().
◆ compute_error() [2/4]
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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 1099 of file mesh.h.
References oomph::FiniteElement::compute_error(), e, and oomph::GeneralisedElement::is_halo().
◆ compute_error() [3/4]
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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 1140 of file mesh.h.
References oomph::FiniteElement::compute_error(), e, i, and oomph::GeneralisedElement::is_halo().
◆ compute_error() [4/4]
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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 1205 of file mesh.h.
References oomph::FiniteElement::compute_error(), e, i, and oomph::GeneralisedElement::is_halo().
◆ compute_norm()
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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 1029 of file mesh.h.
References oomph::GeneralisedElement::compute_norm(), e, and oomph::GeneralisedElement::is_halo().
◆ convert_to_boundary_node() [1/2]
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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 2317 of file mesh.cc.
References oomph::Node::copy(), oomph::SolidNode::copy(), e, Element_pt, nelement(), Node_pt, node_pt(), and oomph::Data::time_stepper_pt().
Referenced by oomph::FishMesh< ELEMENT >::build_mesh(), oomph::TwoLayerSpineMesh< ELEMENT >::build_two_layer_mesh(), 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().
◆ convert_to_boundary_node() [2/2]
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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 2291 of file mesh.cc.
References convert_to_boundary_node(), e, Element_pt, finite_element_pt(), and nelement().
◆ copy_boundary_node_data_from_nodes()
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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 oomph::Node::get_boundaries_pt(), oomph::Node::is_on_boundary(), nboundary(), nnode(), node_pt(), and set_nboundary().
◆ create_shared_boundaries()
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Creates the shared boundaries, only used in unstructured meshes In this case with the "TriangleMesh" class.
Reimplemented in oomph::TriangleMesh< ELEMENT >.
Definition at line 2134 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.
Definition at line 8816 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(), try_to_add_haloed_node_pt(), 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 648 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()
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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 683 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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◆ disable_resizing_of_halo_nodes()
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◆ distribute() [1/2]
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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 4620 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(), nnode(), oomph::FiniteElement::nnode(), node_pt(), oomph::FiniteElement::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(), 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::MacroElementNodeUpdateMesh::distribute(), distribute(), oomph::Problem::distribute(), oomph::Problem::load_balance(), and unset_keep_all_elements_as_halos().
◆ distribute() [2/2]
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Distribute the problem Add to vector of pointers to deleted elements.
Definition at line 1314 of file mesh.h.
References oomph::DocInfo::disable_doc(), and distribute().
◆ doc_boundary_coordinates()
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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 316 of file mesh.h.
References 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 6123 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::Data::is_halo(), oomph::GeneralisedElement::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(), nnode(), oomph::FiniteElement::nnode(), node_pt(), oomph::FiniteElement::node_pt(), oomph::Data::non_halo_proc_ID(), nshared_node(), oomph::DocInfo::number(), oomph::Data::nvalue(), output(), oomph::FiniteElement::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()
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inline |
Doc shared nodes.
Definition at line 1729 of file mesh.h.
References i, oomph::Node::is_hanging(), oomph::Node::ndim(), oomph::oomph_info, 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 2201 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(), and set_nodal_and_elemental_time_stepper().
◆ dump() [1/2]
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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 1027 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 oomph::SpineMesh::dump(), dump(), oomph::Problem::dump(), and face_index_at_boundary().
◆ dump() [2/2]
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Dump the data in the mesh into a file for restart.
Definition at line 889 of file mesh.h.
References dump(), output(), output_fct_paraview(), output_paraview(), read(), and oomph::Global_string_for_annotation::string().
◆ element_pt() [1/4]
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inline |
Return pointer to element e.
Definition at line 462 of file mesh.h.
References e.
Referenced by oomph::IMRByBDF::actions_after_timestep(), oomph::RefineableTetgenMesh< ELEMENT >::adapt(), oomph::RefineableGmshTetMesh< ELEMENT >::adapt(), oomph::RefineableTriangleMesh< ELEMENT >::adapt(), oomph::PeriodicOrbitAssemblyHandler< NNODE_1D >::adapt_temporal_mesh(), 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::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::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::Problem::get_residuals(), oomph::HopfHandler::HopfHandler(), oomph::ImposeFluxForWomersleyElement< DIM >::ImposeFluxForWomersleyElement(), oomph::Problem::load_balance(), oomph::HelmholtzMGPreconditioner< DIM >::maximum_edge_width(), oomph::ImmersedRigidBodyElement::node_update_adjacent_fluid_elements(), 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::ProjectionProblem< PROJECTABLE_ELEMENT >::pin_dofs_of_field(), oomph::PitchForkHandler::PitchForkHandler(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::project(), oomph::Problem::prune_halo_elements_and_nodes(), oomph::Problem::read(), oomph::Problem::remove_duplicate_data(), oomph::HSL_MA42::reorder_elements(), oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::reposition_spines(), oomph::SolidICProblem::reset_original_state(), 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::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::Z2ErrorEstimator::setup_patches(), oomph::SolidICProblem::setup_problem(), oomph::HSL_MA42::solve(), oomph::AugmentedBlockFoldLinearSolver::solve(), oomph::AugmentedBlockPitchForkLinearSolver::solve(), oomph::BlockHopfLinearSolver::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::ProjectionProblem< PROJECTABLE_ELEMENT >::unpin_all(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::unpin_dofs_of_field(), and oomph::WomersleyImpedanceTubeBase< WOMERSLEY_ELEMENT, DIM >::WomersleyImpedanceTubeBase().
◆ element_pt() [2/4]
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◆ element_pt() [3/4]
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Return reference to the Vector of elements.
Definition at line 470 of file mesh.h.
References Element_pt.
Referenced by oomph::TreeBasedRefineableMeshBase::adapt(), assign_initial_values_impulsive(), oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::BrethertonSpineMesh(), calculate_predictions(), check_halo_schemes(), oomph::TreeBasedRefineableMeshBase::classify_halo_and_haloed_nodes(), 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::MacroElementNodeUpdateChannelWithLeafletMesh< ELEMENT >::MacroElementNodeUpdateChannelWithLeafletMesh(), oomph::MacroElementNodeUpdateCollapsibleChannelMesh< ELEMENT >::MacroElementNodeUpdateCollapsibleChannelMesh(), oomph::MacroElementNodeUpdateRefineableFishMesh< ELEMENT >::MacroElementNodeUpdateRefineableFishMesh(), ndof_types(), nnon_halo_element(), node_update(), 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::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::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::AlgebraicRefineableQuarterTubeMesh< ELEMENT >::setup_algebraic_node_update(), oomph::AlgebraicRefineableQuarterCircleSectorMesh< ELEMENT >::setup_algebraic_node_update(), oomph::RefineableLineMesh< oomph::SpectralPeriodicOrbitElement< NNODE_1D > >::setup_binary_tree_forest(), oomph::MacroElementNodeUpdateRefineableQuarterTubeMesh< ELEMENT >::setup_macro_element_node_update(), oomph::MacroElementNodeUpdateRefineableQuarterCircleSectorMesh< ELEMENT >::setup_macro_element_node_update(), oomph::RefineableBrickMesh< ELEMENT >::setup_octree_forest(), oomph::RefineableQuadMesh< ELEMENT >::setup_quadtree_forest(), and shift_time_values().
◆ element_pt() [4/4]
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Return reference to the Vector of elements.
Definition at line 473 of file mesh.h.
References 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 8539 of file mesh.cc.
References Comm_pt, oomph::FiniteElement::dim(), finite_element_pt(), i, and nelement().
Referenced by nnode().
◆ enable_output_of_halo_elements()
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◆ enable_resizing_of_halo_nodes()
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◆ external_halo_element_pt()
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Access fct to the e-th external halo element in this Mesh whose non-halo counterpart is held on processor p.
Definition at line 1902 of file mesh.h.
References e.
Referenced by oomph::Problem::assign_eqn_numbers(), oomph::Missing_masters_functions::construct_new_external_halo_master_node_helper(), oomph::Multi_domain_functions::construct_new_external_halo_master_node_helper(), oomph::Problem::copy_haloed_eqn_numbers_helper(), oomph::FSI_functions::doc_fsi(), and oomph::Problem::synchronise_dofs().
◆ external_halo_node_pt() [1/2]
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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 2025 of file mesh.h.
Referenced by oomph::Missing_masters_functions::add_external_halo_master_node_helper(), oomph::Multi_domain_functions::add_external_halo_master_node_helper(), oomph::Missing_masters_functions::add_external_halo_node_helper(), oomph::Multi_domain_functions::add_external_halo_node_helper(), oomph::Problem::copy_haloed_eqn_numbers_helper(), delete_all_external_storage(), 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_node_pt() [2/2]
◆ 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 2121 of file mesh.h.
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 1946 of file mesh.h.
References add_external_haloed_element_pt(), and e.
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]
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inline |
Access fct to the j-th external haloed node in this Mesh whose halo external counterpart is held on processor p.
Definition at line 2087 of file mesh.h.
References add_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().
◆ external_haloed_node_pt() [2/2]
◆ 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 870 of file mesh.h.
Referenced by oomph::RefineableTetgenMesh< ELEMENT >::adapt(), oomph::RefineableGmshTetMesh< ELEMENT >::adapt(), oomph::RefineableTriangleMesh< ELEMENT >::adapt(), build_face_mesh(), doc_boundary_coordinates(), and oomph::ThinLayerBrickOnTetMesh< ELEMENT >::ThinLayerBrickOnTetMesh().
◆ finite_element_pt()
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inline |
Upcast (downcast?) to FiniteElement (needed to access FiniteElement member functions).
Definition at line 477 of file mesh.h.
References e.
Referenced by oomph::RefineableTetgenMesh< ELEMENT >::adapt(), oomph::RefineableTriangleMesh< ELEMENT >::adapt(), oomph::TreeBasedRefineableMeshBase::adapt_mesh(), oomph::TetMeshBase::assess_mesh_quality(), oomph::OneDLagrangianMesh< ELEMENT >::assign_default_element_gradients(), oomph::OneDLagrangianMesh< ELEMENT >::assign_undeformed_positions(), oomph::Multi_domain_functions::aux_setup_multi_domain_interaction(), oomph::BackupMeshForProjection< GEOMETRIC_ELEMENT >::BackupMeshForProjection(), oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::BrethertonSpineMesh(), oomph::ChannelSpineMesh< ELEMENT >::build_channel_spine_mesh(), oomph::QuadFromTriangleMesh< ELEMENT >::build_from_scaffold(), oomph::GmshTetMesh< ELEMENT >::build_from_scaffold(), oomph::HorizontalSingleLayerSpineMesh< ELEMENT >::build_horizontal_single_layer_mesh(), oomph::FishMesh< ELEMENT >::build_mesh(), oomph::SingleLayerCubicSpineMesh< ELEMENT >::build_single_layer_mesh(), oomph::SingleLayerSpineMesh< ELEMENT >::build_single_layer_mesh(), oomph::TwoLayerSpineMesh< ELEMENT >::build_two_layer_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(), convert_to_boundary_node(), oomph::RefineableTriangleMesh< ELEMENT >::create_sorted_face_mesh_representation(), distribute(), doc_boundary_coordinates(), oomph::Z2ErrorEstimator::doc_flux(), oomph::FSI_functions::doc_fsi(), oomph::DummyErrorEstimator::DummyErrorEstimator(), oomph::EighthSphereMesh< ELEMENT >::EighthSphereMesh(), oomph::ElasticRefineableQuarterPipeMesh< ELEMENT >::ElasticRefineableQuarterPipeMesh(), oomph::ChannelSpineMesh< ELEMENT >::element_reorder(), elemental_dimension(), oomph::FSIDrivenCavityMesh< ELEMENT >::FSIDrivenCavityMesh(), oomph::FullCircleMesh< ELEMENT >::FullCircleMesh(), oomph::GeompackQuadScaffoldMesh::GeompackQuadScaffoldMesh(), oomph::DummyErrorEstimator::get_element_errors(), oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::initial_element_reorder(), 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::MGSolver< DIM >::plot(), 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::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::reposition_spines(), oomph::MGSolver< DIM >::set_self_test_vector(), oomph::AlgebraicFishMesh< ELEMENT >::setup_algebraic_node_update(), oomph::AlgebraicRefineableQuarterTubeMesh< ELEMENT >::setup_algebraic_node_update(), oomph::AlgebraicRefineableQuarterCircleSectorMesh< ELEMENT >::setup_algebraic_node_update(), oomph::LineMeshBase::setup_boundary_element_info(), oomph::QuadMeshBase::setup_boundary_element_info(), oomph::TriangleMeshBase::setup_boundary_element_info(), oomph::TetMeshBase::setup_boundary_element_info(), oomph::HelmholtzMGPreconditioner< DIM >::setup_interpolation_matrices(), oomph::MGSolver< DIM >::setup_interpolation_matrices(), oomph::SimpleRectangularTriMesh< ELEMENT >::SimpleRectangularTriMesh(), oomph::TetMeshBase::snap_nodes_onto_geometric_objects(), oomph::TetgenScaffoldMesh::TetgenScaffoldMesh(), oomph::ThinLayerBrickOnTetMesh< ELEMENT >::ThinLayerBrickOnTetMesh(), total_size(), oomph::TriangleScaffoldMesh::TriangleScaffoldMesh(), oomph::TubeMesh< ELEMENT >::TubeMesh(), and oomph::WomersleyMesh< WOMERSLEY_ELEMENT >::WomersleyMesh().
◆ flush_element_and_node_storage()
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inline |
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 427 of file mesh.h.
References flush_element_storage(), and flush_node_storage().
Referenced by oomph::RefineableTetgenMesh< ELEMENT >::adapt(), oomph::RefineableGmshTetMesh< ELEMENT >::adapt(), oomph::RefineableTriangleMesh< ELEMENT >::adapt(), oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::BrethertonSpineMesh(), oomph::Problem::load_balance(), prune_halo_elements_and_nodes(), oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::reposition_spines(), 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 443 of file mesh.h.
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 450 of file mesh.h.
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.
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 4418 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 classify_halo_and_haloed_nodes(), and 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).
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 6050 of file mesh.cc.
References Comm_pt, halo_element_pt(), i, and nelement().
Referenced by prune_halo_elements_and_nodes().
◆ get_external_halo_node_pt()
Get vector of pointers to all external halo nodes.
Definition at line 1971 of file mesh.h.
References 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!
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 4514 of file mesh.cc.
References Comm_pt, i, and nhalo_node().
Referenced by add_shared_node_pt().
◆ 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!
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 4569 of file mesh.cc.
References Comm_pt, i, and nhaloed_node().
Referenced by add_shared_node_pt().
◆ get_node_reordering()
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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 500 of file mesh.cc.
References oomph::checked_dynamic_cast(), e, element_pt(), i, nelement(), nnode(), oomph::FiniteElement::nnode(), oomph::NodeOrdering::node_global_position_comparison(), node_pt(), and oomph::FiniteElement::node_pt().
Referenced by add_element_pt(), 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 1775 of file mesh.h.
References nshared_node().
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()
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inline |
◆ halo_element_pt()
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inline |
Return vector of halo elements in this Mesh whose non-halo counterpart is held on processor p.
Definition at line 1406 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(), doc_mesh_distribution(), get_efficiency_of_mesh_distribution(), oomph::TreeBasedRefineableMeshBase::p_adapt(), prune_halo_elements_and_nodes(), setup_shared_node_scheme(), and oomph::TreeBasedRefineableMeshBase::synchronise_nonhanging_nodes().
◆ halo_node_pt()
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inline |
Access fct to the j-th halo node in this Mesh whose non-halo counterpart is held on processor p.
Definition at line 1577 of file mesh.h.
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()
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inline |
Return vector of haloed elements in this Mesh whose haloing counterpart is held on processor p.
Definition at line 1445 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()
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inline |
Access fct to the j-th haloed node in this Mesh whose halo counterpart is held on processor p.
Definition at line 1673 of file mesh.h.
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()
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inline |
Boolean to indicate if Mesh has been distributed.
Definition at line 1266 of file mesh.h.
References communicator_pt().
Referenced by oomph::TreeBasedRefineableMeshBase::adapt(), oomph::TreeBasedRefineableMeshBase::adapt_mesh(), build_face_mesh(), 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::TriangleMeshBase::remesh_from_triangulateio(), and resize_halo_nodes().
◆ max_and_min_element_size()
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inline |
Determine max and min area for all FiniteElements in the mesh (non-FiniteElements are ignored)
Definition at line 676 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).
Merge meshes. Note: This simply merges the meshes' elements and nodes (ignoring duplicates; no boundary information etc. is created).
Definition at line 69 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()
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inline |
Return number of boundaries.
Definition at line 806 of file mesh.h.
Referenced by oomph::RefineableTetgenMesh< ELEMENT >::adapt(), oomph::RefineableGmshTetMesh< ELEMENT >::adapt(), oomph::RefineableTriangleMesh< ELEMENT >::adapt(), oomph::TreeBasedRefineableMeshBase::adapt_mesh(), oomph::QuadFromTriangleMesh< ELEMENT >::build_from_scaffold(), oomph::GmshTetMesh< ELEMENT >::build_from_scaffold(), oomph::FishMesh< 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::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::RefineableTetgenMesh< ELEMENT >::RefineableTetgenMesh(), oomph::TriangleMeshBase::remesh_from_triangulateio(), oomph::LineMeshBase::setup_boundary_element_info(), oomph::QuadMeshBase::setup_boundary_element_info(), oomph::TriangleMeshBase::setup_boundary_element_info(), oomph::TetMeshBase::setup_boundary_element_info(), oomph::TetMeshBase::snap_nodes_onto_geometric_objects(), oomph::SolidTetgenMesh< ELEMENT >::SolidTetgenMesh(), and oomph::TetgenMesh< ELEMENT >::TetgenMesh().
◆ nboundary_element()
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Return number of finite elements that are adjacent to boundary b.
Definition at line 852 of file mesh.h.
Referenced by oomph::RefineableTetgenMesh< ELEMENT >::adapt(), oomph::RefineableGmshTetMesh< ELEMENT >::adapt(), oomph::RefineableTriangleMesh< ELEMENT >::adapt(), oomph::TreeBasedRefineableMeshBase::adapt_mesh(), build_face_mesh(), distribute(), doc_boundary_coordinates(), doc_mesh_distribution(), oomph::NonLinearElasticitySmoothMesh< ELEMENT >::operator()(), oomph::TreeBasedRefineableMeshBase::p_adapt_mesh(), oomph::RefineableTriangleMesh< ELEMENT >::snap_nodes_onto_boundary(), and oomph::ThinLayerBrickOnTetMesh< ELEMENT >::ThinLayerBrickOnTetMesh().
◆ nboundary_node()
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inline |
Return number of nodes on a particular boundary.
Definition at line 809 of file mesh.h.
Referenced by oomph::RefineableTetgenMesh< ELEMENT >::adapt(), oomph::RefineableGmshTetMesh< ELEMENT >::adapt(), oomph::RefineableTriangleMesh< ELEMENT >::adapt(), oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::BrethertonSpineMesh(), build_face_mesh(), oomph::FishMesh< ELEMENT >::build_mesh(), oomph::TwoLayerSpineMesh< ELEMENT >::build_two_layer_mesh(), oomph::TriangleMeshBase::dump_triangulateio(), oomph::QuarterPipeMesh< ELEMENT >::QuarterPipeMesh(), oomph::TriangleMeshBase::remesh_from_triangulateio(), oomph::ElasticRectangularQuadMesh< ELEMENT >::set_boundary_coordinates(), oomph::RefineableTriangleMesh< ELEMENT >::snap_nodes_onto_boundary(), oomph::TetMeshBase::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 8395 of file mesh.cc.
References Comm_pt, element_pt(), i, is_mesh_distributed(), and nelement().
Referenced by nnode().
◆ nelement()
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inline |
Return number of elements in the mesh.
Definition at line 587 of file mesh.h.
Referenced by oomph::IMRByBDF::actions_after_timestep(), oomph::RefineableTetgenMesh< ELEMENT >::adapt(), oomph::TreeBasedRefineableMeshBase::adapt(), oomph::RefineableGmshTetMesh< ELEMENT >::adapt(), oomph::RefineableTriangleMesh< ELEMENT >::adapt(), oomph::Problem::adapt(), oomph::TreeBasedRefineableMeshBase::adapt_mesh(), oomph::PeriodicOrbitAssemblyHandler< NNODE_1D >::adapt_temporal_mesh(), oomph::PressureBasedSolidLSCPreconditioner::assemble_mass_matrix_diagonal(), 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::ChannelSpineMesh< ELEMENT >::build_channel_spine_mesh(), oomph::QuadFromTriangleMesh< ELEMENT >::build_from_scaffold(), oomph::GmshTetMesh< ELEMENT >::build_from_scaffold(), oomph::FishMesh< ELEMENT >::build_mesh(), calculate_predictions(), check_halo_schemes(), check_inverted_elements(), oomph::TriangleScaffoldMesh::check_mesh_integrity(), oomph::TreeBasedRefineableMeshBase::classify_halo_and_haloed_nodes(), 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::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(), distribute(), oomph::Problem::distribute(), oomph::SolidHelpers::doc_2D_principal_stress(), doc_boundary_coordinates(), oomph::Problem::doc_errors(), 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(), oomph::ChannelSpineMesh< ELEMENT >::element_reorder(), elemental_dimension(), oomph::Problem::enable_mass_matrix_reuse(), 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::TreeBasedRefineableMeshBase::get_refinement_levels(), oomph::FoldHandler::get_residuals(), oomph::HopfHandler::get_residuals(), oomph::Problem::get_residuals(), oomph::HopfHandler::HopfHandler(), oomph::ImposeFluxForWomersleyElement< DIM >::ImposeFluxForWomersleyElement(), oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::initial_element_reorder(), 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(), nnon_halo_element(), nodal_dimension(), node_update(), oomph::ImmersedRigidBodyElement::node_update_adjacent_fluid_elements(), oomph::LinearElasticitySmoothMesh< LINEAR_ELASTICITY_ELEMENT >::operator()(), oomph::PoissonSmoothMesh< POISSON_ELEMENT >::operator()(), oomph::PeriodicOrbitAssemblyHandler< NNODE_1D >::orbit_output(), oomph::TreeBasedRefineableMeshBase::p_adapt(), oomph::Problem::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::ProjectionProblem< PROJECTABLE_ELEMENT >::pin_dofs_of_field(), oomph::PitchForkHandler::PitchForkHandler(), oomph::MGSolver< DIM >::plot(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::project(), prune_halo_elements_and_nodes(), oomph::Problem::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::Problem::remove_duplicate_data(), oomph::HSL_MA42::reorder_elements(), oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::reposition_spines(), oomph::SolidICProblem::reset_original_state(), 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::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< oomph::SpectralPeriodicOrbitElement< NNODE_1D > >::setup_binary_tree_forest(), oomph::LineMeshBase::setup_boundary_element_info(), oomph::QuadMeshBase::setup_boundary_element_info(), oomph::TriangleMeshBase::setup_boundary_element_info(), oomph::TetMeshBase::setup_boundary_element_info(), oomph::Problem::setup_dof_halo_scheme(), oomph::Problem::setup_element_count_per_dof(), oomph::HelmholtzMGPreconditioner< DIM >::setup_interpolation_matrices(), oomph::MGSolver< DIM >::setup_interpolation_matrices(), oomph::MacroElementNodeUpdateRefineableQuarterTubeMesh< ELEMENT >::setup_macro_element_node_update(), oomph::MacroElementNodeUpdateRefineableQuarterCircleSectorMesh< ELEMENT >::setup_macro_element_node_update(), oomph::RefineableBrickMesh< ELEMENT >::setup_octree_forest(), oomph::Z2ErrorEstimator::setup_patches(), oomph::SolidICProblem::setup_problem(), oomph::RefineableQuadMesh< ELEMENT >::setup_quadtree_forest(), shift_time_values(), oomph::TetMeshBase::snap_nodes_onto_geometric_objects(), oomph::HSL_MA42::solve(), oomph::AugmentedBlockFoldLinearSolver::solve(), oomph::AugmentedBlockPitchForkLinearSolver::solve(), oomph::BlockHopfLinearSolver::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::Problem::synchronise_eqn_numbers(), total_size(), oomph::METIS::uniform_partition_mesh(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::unpin_all(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::unpin_dofs_of_field(), oomph::TreeBasedRefineableMeshBase::unrefine_uniformly(), oomph::WomersleyImpedanceTubeBase< WOMERSLEY_ELEMENT, DIM >::WomersleyImpedanceTubeBase(), oomph::WomersleyMesh< WOMERSLEY_ELEMENT >::WomersleyMesh(), and oomph::WomersleyProblem< WOMERSLEY_ELEMENT, DIM >::WomersleyProblem().
◆ nexternal_halo_element() [1/2]
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Total number of external halo elements in this Mesh.
Definition at line 1874 of file mesh.h.
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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◆ nexternal_halo_node() [1/2]
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Total number of external halo nodes in this Mesh.
Definition at line 1958 of file mesh.h.
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(), resize_halo_nodes(), and oomph::Problem::synchronise_dofs().
◆ nexternal_halo_node() [2/2]
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◆ nexternal_haloed_element() [1/2]
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Total number of external haloed elements in this Mesh.
Definition at line 1918 of file mesh.h.
Referenced by add_external_haloed_element_pt(), oomph::Multi_domain_functions::aux_setup_multi_domain_interaction(), oomph::Problem::copy_haloed_eqn_numbers_helper(), and oomph::Problem::synchronise_dofs().
◆ nexternal_haloed_element() [2/2]
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◆ nexternal_haloed_node() [1/2]
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Total number of external haloed nodes in this Mesh.
Definition at line 2060 of file mesh.h.
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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◆ nhalo_node() [1/2]
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Total number of halo nodes in this Mesh.
Definition at line 1542 of file mesh.h.
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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◆ nhaloed_node() [1/2]
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Total number of haloed nodes in this Mesh.
Definition at line 1645 of file mesh.h.
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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◆ nnode()
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Return number of nodes in the mesh.
Definition at line 590 of file mesh.h.
References elemental_dimension(), ndof_types(), and nodal_dimension().
Referenced by oomph::IMRByBDF::actions_after_timestep(), oomph::RefineableTetgenMesh< ELEMENT >::adapt(), oomph::RefineableGmshTetMesh< ELEMENT >::adapt(), oomph::RefineableTriangleMesh< ELEMENT >::adapt(), oomph::TreeBasedRefineableMeshBase::adapt_mesh(), oomph::PeriodicOrbitAssemblyHandler< NNODE_1D >::adapt_temporal_mesh(), oomph::OneDLagrangianMesh< ELEMENT >::assign_default_element_gradients(), assign_initial_values_impulsive(), oomph::OneDLagrangianMesh< ELEMENT >::assign_undeformed_positions(), 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(), 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(), does_pointer_correspond_to_mesh_data(), dump(), oomph::ElasticRectangularQuadMesh< ELEMENT >::ElasticRectangularQuadMesh(), oomph::FSIDrivenCavityMesh< ELEMENT >::FSIDrivenCavityMesh(), oomph::Z2ErrorEstimator::get_element_errors(), get_node_reordering(), get_some_non_boundary_node(), 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_dofs_of_coordinate(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::project(), prune_dead_nodes(), prune_halo_elements_and_nodes(), read(), reorder_nodes(), oomph::SolidICProblem::reset_original_state(), scale_mesh(), set_consistent_pinned_values_for_continuation(), oomph::SolidMesh::set_lagrangian_nodal_coordinates(), set_nodal_time_stepper(), oomph::Problem::set_pinned_values_to_zero(), oomph::AlgebraicFSIDrivenCavityMesh< ELEMENT >::setup_algebraic_node_update(), oomph::AlgebraicChannelWithLeafletMesh< ELEMENT >::setup_algebraic_node_update(), oomph::AlgebraicCollapsibleChannelMesh< ELEMENT >::setup_algebraic_node_update(), oomph::HelmholtzMGPreconditioner< DIM >::setup_interpolation_matrices_unstructured(), oomph::MGSolver< DIM >::setup_interpolation_matrices_unstructured(), oomph::SolidICProblem::setup_problem(), shift_time_values(), oomph::TetMeshBase::snap_nodes_onto_geometric_objects(), oomph::Problem::synchronise_eqn_numbers(), oomph::TriangleScaffoldMesh::TriangleScaffoldMesh(), and oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::unpin_dofs_of_coordinate().
◆ nnon_halo_element()
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Total number of non-halo elements in this mesh (Costly call computes result on the fly)
Definition at line 1483 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 8679 of file mesh.cc.
References Comm_pt, finite_element_pt(), i, nelement(), and oomph::FiniteElement::nodal_dimension().
Referenced by nnode().
◆ node_pt() [1/2]
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Return pointer to global node n.
Definition at line 456 of file mesh.h.
Referenced by oomph::IMRByBDF::actions_after_timestep(), oomph::RefineableTetgenMesh< ELEMENT >::adapt(), oomph::RefineableGmshTetMesh< ELEMENT >::adapt(), oomph::RefineableTriangleMesh< ELEMENT >::adapt(), oomph::TreeBasedRefineableMeshBase::adapt_mesh(), oomph::PeriodicOrbitAssemblyHandler< NNODE_1D >::adapt_temporal_mesh(), oomph::AlgebraicCollapsibleChannelMesh< ELEMENT >::axial_spacing_fct_pt(), oomph::SolidICProblem::backup_original_state(), oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::BrethertonSpineMesh(), oomph::FishMesh< 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(), 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::Problem::copy(), copy_boundary_node_data_from_nodes(), delete_all_external_storage(), distribute(), oomph::FSI_functions::doc_fsi(), doc_mesh_distribution(), oomph::EighthSphereMesh< ELEMENT >::EighthSphereMesh(), oomph::ElasticRectangularQuadMesh< ELEMENT >::ElasticRectangularQuadMesh(), oomph::SolidMesh::element_node_pt(), 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::HermiteQuadMesh< ELEMENT >::macro_coordinate_position(), oomph::TreeBasedRefineableMeshBase::p_adapt_mesh(), 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::TreeBasedRefineableMeshBase::refine_as_in_reference_mesh(), oomph::RefineableAlgebraicChannelWithLeafletMesh< ELEMENT >::RefineableAlgebraicChannelWithLeafletMesh(), oomph::RefineableAlgebraicCollapsibleChannelMesh< ELEMENT >::RefineableAlgebraicCollapsibleChannelMesh(), oomph::RefineableAlgebraicCylinderWithFlagMesh< ELEMENT >::RefineableAlgebraicCylinderWithFlagMesh(), oomph::RefineableAlgebraicFSIDrivenCavityMesh< ELEMENT >::RefineableAlgebraicFSIDrivenCavityMesh(), reorder_nodes(), oomph::SolidICProblem::reset_original_state(), scale_mesh(), oomph::Problem::set_dofs(), set_nboundary(), oomph::SolidICProblem::set_newmark_initial_condition_directly(), oomph::Problem::set_pinned_values_to_zero(), oomph::MGSolver< DIM >::set_self_test_vector(), oomph::AlgebraicFSIDrivenCavityMesh< ELEMENT >::setup_algebraic_node_update(), oomph::AlgebraicChannelWithLeafletMesh< ELEMENT >::setup_algebraic_node_update(), oomph::AlgebraicCollapsibleChannelMesh< ELEMENT >::setup_algebraic_node_update(), oomph::HelmholtzMGPreconditioner< DIM >::setup_interpolation_matrices_unstructured(), oomph::MGSolver< DIM >::setup_interpolation_matrices_unstructured(), oomph::SolidICProblem::setup_problem(), oomph::SimpleCubicScaffoldTetMesh::SimpleCubicScaffoldTetMesh(), oomph::TetMeshBase::snap_nodes_onto_geometric_objects(), oomph::MGSolver< DIM >::solve(), oomph::Problem::synchronise_eqn_numbers(), oomph::TubeMesh< ELEMENT >::TubeMesh(), oomph::ProjectionProblem< PROJECTABLE_ELEMENT >::unpin_dofs_of_coordinate(), oomph::AlgebraicCylinderWithFlagMesh< ELEMENT >::update_node_update(), oomph::AlgebraicChannelWithLeafletMesh< ELEMENT >::update_node_update(), oomph::AlgebraicFishMesh< ELEMENT >::update_node_update(), and oomph::AlgebraicFSIDrivenCavityMesh< ELEMENT >::~AlgebraicFSIDrivenCavityMesh().
◆ node_pt() [2/2]
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◆ node_update()
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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::AlgebraicMesh, oomph::SpineMesh, oomph::AlgebraicRefineableFishMesh< ELEMENT >, oomph::AlgebraicRefineableQuarterTubeMesh< ELEMENT >, oomph::AlgebraicRefineableQuarterCircleSectorMesh< ELEMENT >, oomph::AlgebraicFishMesh< ELEMENT >, oomph::MacroElementNodeUpdateMesh, oomph::MacroElementNodeUpdateRefineableQuarterCircleSectorMesh< ELEMENT >, oomph::MacroElementNodeUpdateRefineableQuarterTubeMesh< ELEMENT >, and oomph::MacroElementNodeUpdateRefineableFishMesh< ELEMENT >.
Definition at line 290 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(), nnode(), oomph::FiniteElement::nnode(), Node_pt, oomph::FiniteElement::node_pt(), s, and oomph::Node::x().
Referenced by add_element_pt(), oomph::AlgebraicCollapsibleChannelMesh< ELEMENT >::AlgebraicCollapsibleChannelMesh(), oomph::AlgebraicRefineableQuarterTubeMesh< ELEMENT >::AlgebraicRefineableQuarterTubeMesh(), 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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Total number of root halo elements in this Mesh.
Definition at line 1496 of file mesh.h.
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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◆ nroot_haloed_element() [1/2]
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Total number of root haloed elements in this Mesh.
Definition at line 1584 of file mesh.h.
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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◆ nshared_node() [1/2]
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Total number of shared nodes in this Mesh.
Definition at line 1717 of file mesh.h.
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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◆ 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 8206 of file mesh.cc.
References External_halo_node_pt.
Referenced by oomph::Problem::remove_duplicate_data(), and set_external_halo_node_pt().
◆ operator=()
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Broken assignment operator.
Definition at line 408 of file mesh.h.
References oomph::BrokenCopy::broken_assign(), and ~Mesh().
◆ output() [1/6]
| 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 1761 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(), dump(), output(), oomph::Problem::partition_global_mesh(), oomph::MeshAsGeomObject::position(), and oomph::TreeBasedRefineableMeshBase::refine_as_in_reference_mesh().
◆ output() [2/6]
| 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 1803 of file mesh.cc.
References e, Element_pt, oomph::GeneralisedElement::is_halo(), oomph::oomph_info, oomph::FiniteElement::output(), and Output_halo_elements.
◆ 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 1850 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 1893 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]
|
inline |
◆ output() [6/6]
|
inline |
Output at f(n_plot) points in each element.
Definition at line 947 of file mesh.h.
References output(), output_boundaries(), and output_fct().
◆ output_boundaries() [1/2]
| 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 1001 of file mesh.cc.
References Boundary_node_pt, and nboundary().
Referenced by doc_mesh_distribution(), output(), and output_boundaries().
◆ output_boundaries() [2/2]
|
inline |
Output the nodes on the boundaries (into separate tecplot zones). Specify filename
Definition at line 970 of file mesh.h.
References assign_initial_values_impulsive(), calculate_predictions(), output_boundaries(), and shift_time_values().
◆ output_external_halo_elements() [1/2]
|
inline |
Output all external halo elements.
Definition at line 1814 of file mesh.h.
Referenced by check_halo_schemes().
◆ output_external_halo_elements() [2/2]
|
inline |
Output all external halo elements with processor p.
Definition at line 1827 of file mesh.h.
References e, and oomph::FiniteElement::output().
◆ output_external_haloed_elements() [1/2]
|
inline |
Output all external haloed elements.
Definition at line 1844 of file mesh.h.
Referenced by check_halo_schemes().
◆ output_external_haloed_elements() [2/2]
|
inline |
Output all external haloed elements with processor p.
Definition at line 1857 of file mesh.h.
References e, and oomph::FiniteElement::output().
◆ output_fct() [1/2]
| 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 1936 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 output().
◆ output_fct() [2/2]
| 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 1979 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_paraview()
| 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 1465 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().
Referenced by dump().
◆ 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 1167 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().
Referenced by dump().
◆ 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 900 of file mesh.cc.
References Boundary_node_pt, nboundary(), nnode(), and Node_pt.
Referenced by oomph::TreeBasedRefineableMeshBase::adapt_mesh(), check_for_repeated_nodes(), distribute(), oomph::TreeBasedRefineableMeshBase::p_adapt_mesh(), 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 1333 of file mesh.h.
References check_halo_schemes(), classify_halo_and_haloed_nodes(), oomph::DocInfo::disable_doc(), doc_mesh_distribution(), and get_efficiency_of_mesh_distribution().
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.
(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 5289 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(), nnode(), oomph::FiniteElement::nnode(), node_pt(), oomph::FiniteElement::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 1070 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 dump(), oomph::SpineMesh::read(), and oomph::Problem::read().
◆ remove_boundary_node()
| void oomph::Mesh::remove_boundary_node | ( | const unsigned & | b, |
| Node *const & | node_pt | ||
| ) |
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 222 of file mesh.cc.
References Boundary_node_pt, and oomph::Node::remove_from_boundary().
Referenced by oomph::TwoLayerSpineMesh< ELEMENT >::build_two_layer_mesh(), delete_all_external_storage(), oomph::Problem::remove_duplicate_data(), and set_nboundary().
◆ 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 208 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 set_nboundary().
◆ 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 192 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.
Consolidate external halo node storage by removing nulled out pointes in external halo and haloed schemes
Definition at line 8226 of file mesh.cc.
References Comm_pt, External_halo_node_pt, and External_haloed_node_pt.
Referenced by set_external_halo_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 483 of file mesh.cc.
References get_node_reordering(), i, nnode(), and node_pt().
Referenced by oomph::TreeBasedRefineableMeshBase::adapt(), oomph::TreeBasedRefineableMeshBase::adapt_mesh(), add_element_pt(), 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.
Definition at line 297 of file mesh.h.
Referenced by distribute().
◆ 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)
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 4106 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 oomph::TreeBasedRefineableMeshBase::classify_halo_and_haloed_nodes(), and 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 1518 of file mesh.h.
Referenced by halo_element_pt(), and oomph::Problem::setup_base_mesh_info_after_pruning().
◆ root_halo_element_pt() [2/2]
|
inline |
◆ 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 1612 of file mesh.h.
Referenced by haloed_element_pt(), and oomph::Problem::setup_base_mesh_info_after_pruning().
◆ root_haloed_element_pt() [2/2]
|
inline |
◆ 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 386 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 715 of file mesh.cc.
References check_for_repeated_nodes(), Element_pt, i, Node_pt, and oomph::oomph_info.
Referenced by build_face_mesh(), 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 1293 of file mesh.h.
Referenced by build_face_mesh(), and oomph::Problem::distribute().
◆ set_consistent_pinned_values_for_continuation()
| void oomph::Mesh::set_consistent_pinned_values_for_continuation | ( | ContinuationStorageScheme *const & | continuation_storage_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 2167 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(), and set_nodal_and_elemental_time_stepper().
◆ 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 2262 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 2046 of file mesh.h.
References external_halo_node_pt(), null_external_halo_node(), and remove_null_pointers_from_external_halo_node_storage().
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 2112 of file mesh.h.
References external_haloed_node_pt().
Referenced by oomph::Problem::remove_null_pointers_from_external_halo_node_storage().
◆ set_keep_all_elements_as_halos()
|
inline |
◆ 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 2132 of file mesh.cc.
References Suppress_warning_about_empty_mesh_level_time_stepper_function.
Referenced by set_nodal_and_elemental_time_stepper(), and 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 add_boundary_node(), node_pt(), remove_boundary_node(), and remove_boundary_nodes().
Referenced by oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::BrethertonSpineMesh(), oomph::FishMesh< ELEMENT >::build_mesh(), oomph::TwoLayerSpineMesh< ELEMENT >::build_two_layer_mesh(), oomph::ChannelWithLeafletMesh< ELEMENT >::ChannelWithLeafletMesh(), oomph::CollapsibleChannelMesh< ELEMENT >::CollapsibleChannelMesh(), copy_boundary_node_data_from_nodes(), 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 993 of file mesh.h.
References does_pointer_correspond_to_mesh_data(), set_consistent_pinned_values_for_continuation(), set_elemental_internal_time_stepper(), set_mesh_level_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 2244 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::TetMeshBase, oomph::BrickMeshBase, oomph::HermiteQuadMesh< ELEMENT >, oomph::TriangleMeshBase, oomph::QuadMeshBase, and oomph::LineMeshBase.
Definition at line 288 of file mesh.h.
Referenced by oomph::TreeBasedRefineableMeshBase::adapt_mesh(), oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::BrethertonSpineMesh(), oomph::TwoLayerSpineMesh< ELEMENT >::build_two_layer_mesh(), distribute(), oomph::TreeBasedRefineableMeshBase::p_adapt_mesh(), prune_halo_elements_and_nodes(), 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::TetMeshBase, oomph::HermiteQuadMesh< ELEMENT >, oomph::BrickMeshBase, oomph::TriangleMeshBase, oomph::QuadMeshBase, and oomph::LineMeshBase.
◆ 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 2438 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 1766 of file mesh.h.
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(), 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 2059 of file mesh.cc.
References e, element_pt(), nelement(), nnode(), and Node_pt.
Referenced by output_boundaries(), and 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 2618 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()
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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 693 of file mesh.h.
References check_inverted_elements(), e, finite_element_pt(), nelement(), and oomph::FiniteElement::size().
◆ try_to_add_haloed_node_pt()
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inlinevirtual |
Reimplemented in oomph::RefineableTriangleMesh< ELEMENT >.
Definition at line 2172 of file mesh.h.
References delete_all_external_storage().
◆ try_to_add_root_haloed_element_pt()
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inlinevirtual |
Reimplemented in oomph::RefineableTriangleMesh< ELEMENT >.
◆ unset_keep_all_elements_as_halos()
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inline |
Calll this function to unset the flag that keeps all elements in the mesh as halo elements.
Definition at line 1300 of file mesh.h.
References distribute().
Friends And Related Function Documentation
◆ Problem
Member Data Documentation
◆ Boundary_coordinate_exists
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protected |
Vector of boolean data that indicates whether the boundary coordinates have been set for the boundary.
Definition at line 201 of file mesh.h.
Referenced by oomph::FishMesh< ELEMENT >::build_mesh(), oomph::TwoLayerSpineMesh< ELEMENT >::build_two_layer_mesh(), oomph::ChannelWithLeafletMesh< ELEMENT >::ChannelWithLeafletMesh(), oomph::CollapsibleChannelMesh< ELEMENT >::CollapsibleChannelMesh(), oomph::TriangleMeshBase::dump_triangulateio(), oomph::FSIDrivenCavityMesh< ELEMENT >::FSIDrivenCavityMesh(), oomph::FullCircleMesh< ELEMENT >::FullCircleMesh(), oomph::QuarterCircleSectorMesh< ELEMENT >::QuarterCircleSectorMesh(), oomph::QuarterPipeMesh< ELEMENT >::QuarterPipeMesh(), oomph::QuarterTubeMesh< ELEMENT >::QuarterTubeMesh(), oomph::TriangleMeshBase::remesh_from_triangulateio(), oomph::ElasticRectangularQuadMesh< ELEMENT >::set_boundary_coordinates(), oomph::TetMeshBase::snap_nodes_onto_geometric_objects(), oomph::ThinLayerBrickOnTetMesh< ELEMENT >::ThinLayerBrickOnTetMesh(), and oomph::TubeMesh< ELEMENT >::TubeMesh().
◆ Boundary_element_pt
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protected |
Vector of Vector of pointers to elements on the boundaries: Boundary_element_pt(b,e)
Definition at line 102 of file mesh.h.
Referenced by oomph::LineMeshBase::setup_boundary_element_info(), oomph::QuadMeshBase::setup_boundary_element_info(), oomph::TriangleMeshBase::setup_boundary_element_info(), oomph::TetMeshBase::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 94 of file mesh.h.
Referenced by add_boundary_node(), oomph::TwoLayerSpineMesh< ELEMENT >::build_two_layer_mesh(), merge_meshes(), output_boundaries(), prune_dead_nodes(), remove_boundary_node(), and remove_boundary_nodes().
◆ Comm_pt
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protected |
Pointer to communicator – set to NULL if mesh is not distributed.
Definition at line 130 of file mesh.h.
Referenced by oomph::TreeBasedRefineableMeshBase::adapt(), check_halo_schemes(), oomph::TreeBasedRefineableMeshBase::classify_halo_and_haloed_nodes(), 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(), 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(), 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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static |
Default Steady Timestepper, to be used in default arguments to Mesh constructors.
The Steady Timestepper.
Definition at line 85 of file mesh.h.
Referenced by oomph::PeriodicOrbitAssemblyHandler< NNODE_1D >::adapt_temporal_mesh(), and oomph::TetMeshBase::snap_to_quadratic_surface().
◆ Element_pt
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protected |
Vector of pointers to generalised elements.
Definition at line 197 of file mesh.h.
Referenced by oomph::TreeBasedRefineableMeshBase::adapt_mesh(), assign_global_eqn_numbers(), assign_local_eqn_numbers(), oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::BrethertonSpineMesh(), oomph::FishMesh< ELEMENT >::build_mesh(), convert_to_boundary_node(), describe_dofs(), describe_local_dofs(), oomph::EighthSphereMesh< ELEMENT >::EighthSphereMesh(), oomph::SolidMesh::element_node_pt(), element_pt(), oomph::ChannelSpineMesh< ELEMENT >::element_reorder(), oomph::FullCircleMesh< ELEMENT >::FullCircleMesh(), oomph::GeompackQuadScaffoldMesh::GeompackQuadScaffoldMesh(), oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::initial_element_reorder(), merge_meshes(), output(), output_fct(), output_fct_paraview(), output_paraview(), oomph::QuarterCircleSectorMesh< ELEMENT >::QuarterCircleSectorMesh(), oomph::QuarterTubeMesh< ELEMENT >::QuarterTubeMesh(), oomph::RectangleWithHoleMesh< ELEMENT >::RectangleWithHoleMesh(), self_test(), oomph::SimpleCubicScaffoldTetMesh::SimpleCubicScaffoldTetMesh(), oomph::SimpleRectangularTriMesh< ELEMENT >::SimpleRectangularTriMesh(), oomph::TetgenScaffoldMesh::TetgenScaffoldMesh(), oomph::ThinLayerBrickOnTetMesh< ELEMENT >::ThinLayerBrickOnTetMesh(), oomph::TriangleScaffoldMesh::TriangleScaffoldMesh(), oomph::TubeMesh< ELEMENT >::TubeMesh(), and ~Mesh().
◆ External_halo_element_pt
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protected |
Map of vectors holding the pointers to the external halo elements.
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.
Definition at line 137 of file mesh.h.
Referenced by check_halo_schemes(), delete_all_external_storage(), and get_all_halo_data().
◆ External_halo_node_pt
Map of vectors holding the pointers to the external halo nodes.
Definition at line 146 of file mesh.h.
Referenced by delete_all_external_storage(), get_all_halo_data(), node_update(), null_external_halo_node(), and remove_null_pointers_from_external_halo_node_storage().
◆ External_haloed_element_pt
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protected |
Map of vectors holding the pointers to the external haloed elements.
Definition at line 140 of file mesh.h.
Referenced by add_external_haloed_element_pt(), check_halo_schemes(), and delete_all_external_storage().
◆ External_haloed_node_pt
Map of vectors holding the pointers to the external haloed nodes.
Definition at line 149 of file mesh.h.
Referenced by add_external_haloed_node_pt(), delete_all_external_storage(), and remove_null_pointers_from_external_halo_node_storage().
◆ 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 106 of file mesh.h.
Referenced by oomph::LineMeshBase::setup_boundary_element_info(), oomph::QuadMeshBase::setup_boundary_element_info(), oomph::TriangleMeshBase::setup_boundary_element_info(), oomph::TetMeshBase::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 117 of file mesh.h.
Referenced by classify_halo_and_haloed_nodes(), and get_all_halo_data().
◆ Haloed_node_pt
Map of vectors holding the pointers to the haloed nodes.
Definition at line 120 of file mesh.h.
Referenced by classify_halo_and_haloed_nodes().
◆ Keep_all_elements_as_halos
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protected |
bool to indicate whether to keep all elements in a mesh as halos or not
Definition at line 152 of file mesh.h.
Referenced by distribute().
◆ Lookup_for_elements_next_boundary_is_setup
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protected |
Flag to indicate that the lookup schemes for elements that are adjacent to the boundaries has been set up.
Definition at line 98 of file mesh.h.
Referenced by oomph::TreeBasedRefineableMeshBase::adapt_mesh(), doc_mesh_distribution(), merge_meshes(), oomph::TreeBasedRefineableMeshBase::p_adapt_mesh(), oomph::LineMeshBase::setup_boundary_element_info(), oomph::QuadMeshBase::setup_boundary_element_info(), oomph::TriangleMeshBase::setup_boundary_element_info(), oomph::TetMeshBase::setup_boundary_element_info(), and oomph::ThinLayerBrickOnTetMesh< ELEMENT >::ThinLayerBrickOnTetMesh().
◆ Node_pt
Vector of pointers to nodes.
Definition at line 194 of file mesh.h.
Referenced by assign_global_eqn_numbers(), assign_initial_values_impulsive(), oomph::BrethertonSpineMesh< ELEMENT, INTERFACE_ELEMENT >::BrethertonSpineMesh(), oomph::FishMesh< ELEMENT >::build_mesh(), calculate_predictions(), oomph::TriangleScaffoldMesh::check_mesh_integrity(), convert_to_boundary_node(), delete_all_external_storage(), describe_dofs(), does_pointer_correspond_to_mesh_data(), oomph::EighthSphereMesh< ELEMENT >::EighthSphereMesh(), oomph::FullCircleMesh< ELEMENT >::FullCircleMesh(), oomph::GeompackQuadScaffoldMesh::GeompackQuadScaffoldMesh(), merge_meshes(), oomph::SolidMesh::node_pt(), node_update(), prune_dead_nodes(), oomph::QuarterCircleSectorMesh< ELEMENT >::QuarterCircleSectorMesh(), oomph::QuarterTubeMesh< ELEMENT >::QuarterTubeMesh(), oomph::RectangleWithHoleMesh< ELEMENT >::RectangleWithHoleMesh(), 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(), and ~Mesh().
◆ Output_halo_elements
| bool oomph::Mesh::Output_halo_elements |
Bool for output of halo elements.
Definition at line 1686 of file mesh.h.
Referenced by Mesh(), output(), and output_fct().
◆ Resize_halo_nodes_not_required
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protected |
Set this to true to suppress resizing of halo nodes (at your own risk!)
Definition at line 155 of file mesh.h.
Referenced by oomph::TreeBasedRefineableMeshBase::classify_halo_and_haloed_nodes(), and classify_halo_and_haloed_nodes().
◆ Root_halo_element_pt
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protected |
Map of vectors holding the pointers to the root halo elements.
Definition at line 111 of file mesh.h.
Referenced by classify_halo_and_haloed_nodes(), get_all_halo_data(), and prune_halo_elements_and_nodes().
◆ Root_haloed_element_pt
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protected |
Map of vectors holding the pointers to the root haloed elements.
Definition at line 114 of file mesh.h.
Referenced by classify_halo_and_haloed_nodes(), and prune_halo_elements_and_nodes().
◆ 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 127 of file mesh.h.
Referenced by check_halo_schemes(), setup_shared_node_scheme(), oomph::TreeBasedRefineableMeshBase::synchronise_hanging_nodes(), and synchronise_shared_nodes().
◆ Suppress_warning_about_empty_mesh_level_time_stepper_function
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static |
Boolean used to control warning about empty mesh level timestepper function.
Static boolean flag to control warning about mesh level timesteppers.
Definition at line 246 of file mesh.h.
Referenced by set_mesh_level_time_stepper().
The documentation for this class was generated from the following files: