#include <mesh.h>

Collaboration diagram for Mesh:

Public Types
enum	{ x_coord =0, y_coord =1, z_coord =2 }

Public Member Functions
	Mesh (const std::string &input_str="{mesh_file=\"\"}", MPI_Comm com=MPI_COMM_WORLD)

	Mesh (Input::Record in_record, MPI_Comm com=MPI_COMM_WORLD)

void	reinit (Input::Record in_record)

	~Mesh ()
	Destructor. More...

unsigned int	n_nodes () const

unsigned int	n_elements () const

unsigned int	n_boundaries () const

unsigned int	n_edges () const

unsigned int	n_corners ()

const RegionDB &	region_db () const

Partitioning *	get_part ()

MPI_Comm	get_comm () const

void	make_intersec_elements ()

unsigned int	n_sides ()

unsigned int	n_vb_neighbours () const

unsigned int	max_edge_sides (unsigned int dim) const

void	read_gmsh_from_stream (istream &in)

void	init_from_input ()

vector< int > const &	elements_id_maps (bool boundary_domain) const

ElementAccessor< 3 >	element_accessor (unsigned int idx, bool boundary=false)

Public Attributes
NodeVector	node_vector
	Vector of nodes of the mesh. More...

ElementVector	element
	Vector of elements of the mesh. More...

vector< Boundary >	boundary_

ElementVector	bc_elements

std::vector< Edge >	edges
	Vector of MH edges, this should not be part of the geometrical mesh. More...

vector< Intersection >	intersections

vector< vector< unsigned int > >	master_elements

vector< Neighbour >	vb_neighbours_

int	n_insides

int	n_exsides

int	n_sides_

int	n_lines

int	n_triangles

int	n_tetrahedras

vector< vector< vector < unsigned int > > >	side_nodes

Static Public Attributes
static const unsigned int	undef_idx =-1

static Input::Type::Record	input_type

Protected Member Functions
void	make_neighbours_and_edges ()

void	make_edge_permutations ()

void	create_node_element_lists ()

void	intersect_element_lists (vector< unsigned int > const &nodes_list, vector< unsigned int > &intersection_element_list)

bool	find_lower_dim_element (ElementVector &elements, vector< unsigned int > &element_list, unsigned int dim, unsigned int &element_idx)

bool	same_sides (const SideIter &si, vector< unsigned int > &side_nodes)

void	setup_topology ()

void	element_to_neigh_vb ()

void	count_element_types ()

void	count_side_types ()

Protected Attributes
unsigned int	n_bb_neigh

unsigned int	n_vb_neigh

vector< int >	bulk_elements_id_

vector< int >	boundary_elements_id_

unsigned int	n_all_input_elements_
	Number of elements read from input. More...

vector< vector< unsigned int > >	node_elements

unsigned int	max_edge_sides_ [3]
	Maximal number of sides per one edge in the actual mesh (set in make_neighbours_and_edges()). More...

RegionDB	region_db_

boost::shared_ptr< Partitioning >	part_

Input::Record	in_record_

MPI_Comm	comm_

Friends
class	GmshMeshReader

Detailed Description

Definition at line 109 of file mesh.h.

Member Enumeration Documentation

anonymous enum

Labels for coordinate indexes in arma::vec3 representing vectors and points.

Enumerator
x_coord
y_coord
z_coord

Definition at line 117 of file mesh.h.

Constructor & Destructor Documentation

Mesh::Mesh	(	const std::string &	input_str = `"{mesh_file=\"\"}"`,
		MPI_Comm	com = `MPI_COMM_WORLD`
	)

Constructor with input record given by string. Aimed for testing purpose. Do not process input record. That is done in init_from_input.

Definition at line 85 of file mesh.cc.

Mesh::Mesh	(	Input::Record	in_record,
		MPI_Comm	com = `MPI_COMM_WORLD`
	)

Constructor from an input record. Do not process input record. That is done in init_from_input.

Definition at line 97 of file mesh.cc.

Mesh::~Mesh ( )

Destructor.

Definition at line 151 of file mesh.cc.

Member Function Documentation

void Mesh::count_element_types ( )

protected

Definition at line 200 of file mesh.cc.

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void Mesh::count_side_types ( )

protected

Definition at line 272 of file mesh.cc.

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void Mesh::create_node_element_lists ( )

protected

Create element lists for nodes in Mesh::nodes_elements.

Definition at line 285 of file mesh.cc.

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ElementAccessor< 3 > Mesh::element_accessor	(	unsigned int	idx,
		bool	boundary = `false`
	)

Definition at line 670 of file mesh.cc.

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void Mesh::element_to_neigh_vb ( )

protected

Definition at line 596 of file mesh.cc.

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vector< int > const & Mesh::elements_id_maps ( bool boundary_domain ) const

Returns vector of ID numbers of elements, either bulk or bc elemnts.

Definition at line 676 of file mesh.cc.

bool Mesh::find_lower_dim_element	(	ElementVector &	elements,
		vector< unsigned int > &	element_list,
		unsigned int	dim,
		unsigned int &	element_idx
	)

protected

Remove elements with dimension not equal to dim from element_list. Index of the first element of dimension dim-1, is returned in element_idx. If no such element is found the method returns false, if one such element is found the method returns true, if more elements are found we report an user input error.

Definition at line 326 of file mesh.cc.

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MPI_Comm Mesh::get_comm ( ) const

inline

Returns MPI communicator of the mesh.

Definition at line 167 of file mesh.h.

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Partitioning * Mesh::get_part ( )

Returns pointer to partitioning object. Partitioning is created during setup_topology.

Definition at line 191 of file mesh.cc.

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void Mesh::init_from_input ( )

Reads input record, creates regions, read the mesh, setup topology. creates region sets.

Definition at line 227 of file mesh.cc.

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void Mesh::intersect_element_lists	(	vector< unsigned int > const &	nodes_list,
		vector< unsigned int > &	intersection_element_list
	)

protected

Find intersection of element lists given by Mesh::node_elements for elements givne by nodes_list parameter. The result is placed into vector intersection_element_list. If the node_list is empty, and empty intersection is returned.

Definition at line 298 of file mesh.cc.

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void Mesh::make_edge_permutations ( )

protected

On edges sharing sides of many elements it may happen that each side has its nodes ordered in a different way. This method finds the permutation for each side so as to obtain the ordering of side 0.

Definition at line 525 of file mesh.cc.

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void Mesh::make_intersec_elements ( )

Definition at line 631 of file mesh.cc.

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void Mesh::make_neighbours_and_edges ( )

protected

This replaces read_neighbours() in order to avoid using NGH preprocessor.

TODO:

Avoid maps:

4) replace EdgeVector by std::vector<Edge> (need not to know the size)

5) need not to have temporary array for Edges, only postpone setting pointers in elements and set them after edges are found; we can temporary save Edge index instead of pointer in Neigbours and elements

6) Try replace Edge * by indexes in Neigbours and elements (anyway we have mesh pointer in elements so it is accessible also from Neigbours)

TODO:

use std::is_any for setting is_neigbour
possibly make appropriate constructors for Edge and Neighbour
check side!=-1 when searching neigbouring element
process bc_elements first, there should be no Neigh, but check it set Edge and boundary there

Definition at line 363 of file mesh.cc.

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unsigned int Mesh::max_edge_sides ( unsigned int dim ) const

inline

Returns maximal number of sides of one edge, which connects elements of dimension dim.

Parameters

dim	Dimension of elements sharing the edge.

Definition at line 182 of file mesh.h.

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unsigned int Mesh::n_boundaries ( ) const

inline

Definition at line 145 of file mesh.h.

unsigned int Mesh::n_corners ( )

Definition at line 181 of file mesh.cc.

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unsigned int Mesh::n_edges ( ) const

inline

Definition at line 149 of file mesh.h.

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unsigned int Mesh::n_elements ( ) const

inline

Definition at line 141 of file mesh.h.

unsigned int Mesh::n_nodes ( ) const

inline

Definition at line 137 of file mesh.h.

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unsigned int Mesh::n_sides ( )

Definition at line 172 of file mesh.cc.

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unsigned int Mesh::n_vb_neighbours ( ) const

inline

Definition at line 174 of file mesh.h.

void Mesh::read_gmsh_from_stream ( istream & in )

Definition at line 216 of file mesh.cc.

const RegionDB& Mesh::region_db ( ) const

inline

Definition at line 155 of file mesh.h.

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void Mesh::reinit ( Input::Record in_record )

Common part of both previous constructors and way how to reinitialize a mesh from the given input record.

Definition at line 106 of file mesh.cc.

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bool Mesh::same_sides	(	const SideIter &	si,
		vector< unsigned int > &	side_nodes
	)

protected

Returns true if side si has same nodes as in the list side_nodes.

Definition at line 346 of file mesh.cc.

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void Mesh::setup_topology ( )

protected

Initialize all mesh structures from raw information about nodes and elements (including boundary elements). Namely: create remaining boundary elements and Boundary objects, find edges and compatible neighborings.

Definition at line 252 of file mesh.cc.

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Friends And Related Function Documentation

friend class GmshMeshReader

friend

Definition at line 351 of file mesh.h.

Member Data Documentation

ElementVector Mesh::bc_elements

vector of boundary elements - should replace 'boundary' TODO: put both bulk and bc elements (on zero level) to the same vector or make better map id->element for field inputs that use element IDs the avoid usage of ElementVector etc.

Definition at line 213 of file mesh.h.

vector<Boundary> Mesh::boundary_

Vector of boundary sides where is prescribed boundary condition. TODO: apply all boundary conditions in the main assembling cycle over elements and remove this Vector.

Definition at line 209 of file mesh.h.

vector<int> Mesh::boundary_elements_id_

mutableprotected

Definition at line 322 of file mesh.h.

vector<int> Mesh::bulk_elements_id_

mutableprotected

Vector of both bulk and boundary IDs. Bulk elements come first, then boundary elements, but only the portion that appears in input mesh file and has ID assigned.

TODO: Rather should be part of GMSH reader, but in such case we need store pointer to it in the mesh (good idea, but need more general interface for readers)

Definition at line 322 of file mesh.h.

MPI_Comm Mesh::comm_

protected

MPI communicator used for partitioning and ...

Definition at line 349 of file mesh.h.

std::vector<Edge> Mesh::edges

Vector of MH edges, this should not be part of the geometrical mesh.

Definition at line 216 of file mesh.h.

intersections array for every intersection in which El is master Mesh::element

Vector of elements of the mesh.

For every element El we have vector of indices into This is necessary for true mortar.

Definition at line 205 of file mesh.h.

Input::Record Mesh::in_record_

protected

Accessor to the input record for the mesh.

Definition at line 344 of file mesh.h.

IT::Record Mesh::input_type

static

Initial value:

= IT::Record("Mesh","Record with mesh related data." )
    .declare_key("mesh_file", IT::FileName::input(), IT::Default::obligatory(),
            "Input file with mesh description.")
    .declare_key("regions", IT::Array( RegionDB::region_input_type ), IT::Default::optional(),
            "List of additional region definitions not contained in the mesh.")
    .declare_key("sets", IT::Array( RegionDB::region_set_input_type), IT::Default::optional(),
            "List of region set definitions. There are three region sets implicitly defined:\n"
            "ALL (all regions of the mesh), BOUNDARY (all boundary regions), and BULK (all bulk regions)")
    .declare_key("partitioning", Partitioning::input_type, IT::Default("any_neighboring"), "Parameters of mesh partitioning algorithms.\n" )
    .close()

Definition at line 112 of file mesh.h.

vector<Intersection> Mesh::intersections

Vector of individual intersections of two elements. This is enough for local mortar.

Definition at line 224 of file mesh.h.

vector<vector<unsigned int> > Mesh::master_elements

Definition at line 230 of file mesh.h.

unsigned int Mesh::max_edge_sides_[3]

protected

Maximal number of sides per one edge in the actual mesh (set in make_neighbours_and_edges()).

Definition at line 330 of file mesh.h.

unsigned int Mesh::n_all_input_elements_

protected

Number of elements read from input.

Definition at line 324 of file mesh.h.

unsigned int Mesh::n_bb_neigh

protected

Definition at line 316 of file mesh.h.

int Mesh::n_exsides

Definition at line 238 of file mesh.h.

int Mesh::n_insides

Definition at line 237 of file mesh.h.

int Mesh::n_lines

Definition at line 241 of file mesh.h.

int Mesh::n_sides_

Definition at line 239 of file mesh.h.

int Mesh::n_tetrahedras

Definition at line 243 of file mesh.h.

int Mesh::n_triangles

Definition at line 242 of file mesh.h.

unsigned int Mesh::n_vb_neigh

protected

Definition at line 316 of file mesh.h.

vector<vector<unsigned int> > Mesh::node_elements

protected

Definition at line 327 of file mesh.h.

NodeVector Mesh::node_vector

Vector of nodes of the mesh.

Definition at line 203 of file mesh.h.

boost::shared_ptr<Partitioning> Mesh::part_

protected

Mesh partitioning. Created in setup_topology.

Definition at line 340 of file mesh.h.

RegionDB Mesh::region_db_

protected

Database of regions (both bulk and boundary) of the mesh. Regions are logical parts of the domain that allows setting of different data and boundary conditions on them.

Definition at line 336 of file mesh.h.

vector< vector< vector<unsigned int> > > Mesh::side_nodes

Definition at line 254 of file mesh.h.

const unsigned int Mesh::undef_idx =-1

static

Definition at line 111 of file mesh.h.

vector<Neighbour> Mesh::vb_neighbours_

Vector of compatible neighbourings.

Definition at line 235 of file mesh.h.

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

/home/builder/jenkins/F123-linux-release/flow123d/src/mesh/mesh.h
/home/builder/jenkins/F123-linux-release/flow123d/src/mesh/mesh.cc

Public Types

Public Member Functions

Public Attributes

Static Public Attributes

Protected Member Functions

Protected Attributes

Friends

Detailed Description

Member Enumeration Documentation

Constructor & Destructor Documentation

Member Function Documentation

Friends And Related Function Documentation

Member Data Documentation