Multithreaded implementation of Delaunay in 3d with optional periodic boundary conditions. More...

#include <geogram/delaunay/periodic_delaunay_3d.h>

Inheritance diagram for GEO::PeriodicDelaunay3d:

Classes
struct	IncidentTetrahedra
	Gathers some structures used by some algorithms, makes multithreading more efficient by avoiding dynamic reallocations. More...

Public Member Functions
	PeriodicDelaunay3d (bool periodic, double period=1.0)
	Constructs a new PeriodicDelaunay3d. More...

	PeriodicDelaunay3d (const vec3 &period)
	Constructs a new PeriodicDelaunay3d. More...

void	set_vertices (index_t nb_vertices, const double *vertices) override
	Sets the vertices of this Delaunay, and recomputes the cells. More...

void	set_weights (const double *weights)
	Sets the weights. More...

void	compute ()
	Computes the Delaunay triangulation.

void	use_exact_predicates_for_convex_cell (bool x)
	Use exact predicates in convex cell computations. More...

vec3	vertex (index_t v) const
	Gets a vertex by index. More...

double	weight (index_t v) const
	Gets a weight by index. More...

index_t	nearest_vertex (const double *p) const override
	Computes the nearest vertex from a query point. More...

void	set_BRIO_levels (const vector< index_t > &levels) override
	Specifies the bounds of each level to be used when hierarchic ordering is specified from outside. More...

void	get_incident_tets (index_t v, IncidentTetrahedra &W) const
	computes the set of tetrahedra that are incident to a vertex. More...

void	copy_Laguerre_cell_from_Delaunay (GEO::index_t i, ConvexCell &C, IncidentTetrahedra &W) const
	Copies a Laguerre cell from the triangulation. More...

void	copy_Laguerre_cell_from_Delaunay (GEO::index_t i, ConvexCell &C) const
	Copies a Laguerre cell from the triangulation. More...

bool	has_empty_cells () const
	Tests whether the Laguerre diagram has empty cells. More...

void	save_cells (const std::string &basename, bool clipped)
	Saves the cells in an Alias-Wavefront file. More...

Public Member Functions inherited from GEO::Delaunay
coord_index_t	dimension () const
	Gets the dimension of this Delaunay. More...

index_t	cell_size () const
	Gets the number of vertices in each cell. More...

void	set_reorder (bool x)
	Specifies whether vertices should be reordered. More...

const double *	vertices_ptr () const
	Gets a pointer to the array of vertices. More...

const double *	vertex_ptr (index_t i) const
	Gets a pointer to a vertex by its global index. More...

index_t	nb_vertices () const
	Gets the number of vertices. More...

virtual bool	supports_constraints () const
	Tests whether constraints are supported by this Delaunay. More...

virtual void	set_constraints (const Mesh *mesh)
	Defines the constraints. More...

void	set_refine (bool x)
	Specifies whether the mesh should be refined. More...

bool	get_refine () const
	Tests whether mesh refinement is selected. More...

void	set_quality (double qual)
	Specifies the desired quality for mesh elements when refinement is enabled (. More...

const Mesh *	constraints () const
	Gets the constraints. More...

index_t	nb_cells () const
	Gets the number of cells. More...

index_t	nb_finite_cells () const
	Gets the number of finite cells. More...

const signed_index_t *	cell_to_v () const
	Gets a pointer to the cell-to-vertex incidence array. More...

const signed_index_t *	cell_to_cell () const
	Gets a pointer to the cell-to-cell adjacency array. More...

signed_index_t	cell_vertex (index_t c, index_t lv) const
	Gets a vertex index by cell index and local vertex index. More...

signed_index_t	cell_adjacent (index_t c, index_t lf) const
	Gets an adjacent cell index by cell index and local facet index. More...

bool	cell_is_infinite (index_t c) const
	Tests whether a cell is infinite. More...

bool	cell_is_finite (index_t c) const
	Tests whether a cell is finite. More...

index_t	index (index_t c, signed_index_t v) const
	Retrieves a local vertex index from cell index and global vertex index. More...

index_t	adjacent_index (index_t c1, index_t c2) const
	Retrieves a local facet index from two adacent cell global indices. More...

signed_index_t	vertex_cell (index_t v) const
	Gets an incident cell index by a vertex index. More...

signed_index_t	next_around_vertex (index_t c, index_t lv) const
	Traverses the list of cells incident to a vertex. More...

void	get_neighbors (index_t v, vector< index_t > &neighbors) const
	Gets the one-ring neighbors of vertex v. More...

void	save_histogram (std::ostream &out) const
	Saves the histogram of vertex degree (can be visualized with gnuplot). More...

bool	stores_neighbors () const
	Tests whether neighbors are stored. More...

void	set_stores_neighbors (bool x)
	Specifies whether neighbors should be stored. More...

bool	stores_cicl () const
	Tests whether incident tetrahedra lists are stored. More...

void	set_stores_cicl (bool x)
	Specifies whether incident tetrahedra lists should be stored. More...

bool	keeps_infinite () const
	Tests whether infinite elements are kept. More...

void	set_keeps_infinite (bool x)
	Sets whether infinite elements should be kept. More...

bool	thread_safe () const
	Tests whether thread-safe mode is active. More...

void	set_thread_safe (bool x)
	Specifies whether thread-safe mode should be used. More...

void	set_default_nb_neighbors (index_t x)
	Sets the default number of stored neighbors. More...

index_t	default_nb_neighbors () const
	Gets the default number of stored neighbors. More...

void	clear_neighbors ()
	Frees all memory used for neighbors storage.

void	set_keep_regions (bool x)
	Specifies whether all internal regions should be kept. More...

virtual index_t	region (index_t t) const
	Gets the region id associated with a tetrahedron. More...

virtual void	store_neighbors_CB (index_t i)
	Stores the neighbors of a vertex. More...

Public Member Functions inherited from GEO::Counted
void	ref () const
	Increments the reference count. More...

void	unref () const
	Decrements the reference count. More...

bool	is_shared () const
	Check if the object is shared. More...

int	nb_refs () const
	Gets the number of references that point to this object. More...

Public Member Functions inherited from GEO::Periodic
index_t	periodic_vertex_instance (index_t pv) const
	Gets the instance from a periodic vertex. More...

index_t	periodic_vertex_real (index_t pv) const
	Gets the real vertex from a periodic vertex. More...

signed_index_t	periodic_vertex_real (signed_index_t pv) const
	Gets the real vertex from a periodic vertex. More...

index_t	make_periodic_vertex (index_t real, index_t instance) const
	Makes a periodic vertex from a real vertex and instance. More...

void	periodic_vertex_get_T (index_t pv, int &Tx, int &Ty, int &Tz) const
	Gets the translation from a periodic vertex. More...

void	periodic_vertex_set_T (index_t &pv, int Tx, int Ty, int Tz) const
	Sets the translation in a periodic vertex. More...

std::string	periodic_vertex_to_string (index_t v) const

std::string	binary_to_string (Numeric::uint32 m) const

Protected Member Functions
GEO::index_t	copy_Laguerre_cell_facet_from_Delaunay (GEO::index_t i, const GEO::vec3 &Pi, double wi, double Pi_len2, GEO::index_t t, ConvexCell &C, IncidentTetrahedra &W) const
	Copies a Laguerre cell facet from the triangulation. More...

index_t	compress (bool shrink=true)
	Removes unused tetrahedra. More...

void	update_v_to_cell () override
	Stores for each vertex v a cell incident to v. More...

void	update_cicl () override
	Updates the circular incident cell lists. More...

void	handle_periodic_boundaries ()
	Duplicates the points with Voronoi cells that cross the boundary.

index_t	get_periodic_vertex_instances_to_create (index_t v, ConvexCell &C, bool use_instance[27], bool &cell_is_on_boundary, bool &cell_is_outside_cube, IncidentTetrahedra &W)
	Computes the periodic vertex instances that should be generated. More...

void	insert_vertices (index_t b, index_t e)
	Insert vertices from reorder_[b] to reorder_[e-1]. More...

void	check_volume ()
	Checks the volume of Laguerre cells.

PeriodicDelaunay3dThread *	thread (index_t t)
	Gets a thread by index. More...

index_t	nb_threads () const
	Gets the number of threads. More...

Protected Member Functions inherited from GEO::Delaunay
	Delaunay (coord_index_t dimension)
	Creates a new Delaunay triangulation. More...

	~Delaunay () override
	Delaunay destructor.

virtual void	get_neighbors_internal (index_t v, vector< index_t > &neighbors) const
	Internal implementation for get_neighbors (with vector). More...

virtual void	set_arrays (index_t nb_cells, const signed_index_t cell_to_v, const signed_index_t cell_to_cell)
	Sets the arrays that represent the combinatorics of this Delaunay. More...

virtual void	update_neighbors ()
	Computes the stored neighbor lists.

void	set_next_around_vertex (index_t c1, index_t lv, index_t c2)
	Sets the circular incident edge list. More...

void	set_dimension (coord_index_t dim)
	Sets the dimension of this Delaunay. More...

Protected Member Functions inherited from GEO::Counted
	Counted ()
	Creates a reference counted object. More...

virtual	~Counted ()
	Destroys a reference counted object. More...

Friends
class	PeriodicDelaunay3dThread

Additional Inherited Members
Static Public Member Functions inherited from GEO::Delaunay
static Delaunay *	create (coord_index_t dim, const std::string &name="default")
	Creates a Delaunay triangulation of the specified dimension. More...

static void	initialize ()
	This function needs to be called once before using the Delaunay class. More...

Static Public Member Functions inherited from GEO::Counted
static void	ref (const Counted *counted)
	Increments the reference count. More...

static void	unref (const Counted *counted)
	Decrements the reference count. More...

Static Public Member Functions inherited from GEO::Periodic
static index_t	T_to_instance (int Tx, int Ty, int Tz)
	Gets the instance from a translation. More...

Public Attributes inherited from GEO::Periodic
index_t	nb_vertices_non_periodic_
	Number of real vertices.

Static Public Attributes inherited from GEO::Periodic
static int	translation [27][3]
	Gives for each instance the integer translation coordinates in {-1,0,1}. More...

static int	reorder_instances [27]
	Used to back-map an integer translation to an instance. More...

static bool	instance_is_positive [27]
	Tests whether all the coordinates of the translation vector associated with an instance are 0 or 1.

Protected Attributes inherited from GEO::Delaunay
coord_index_t	dimension_

index_t	vertex_stride_

index_t	cell_size_

index_t	cell_v_stride_

index_t	cell_neigh_stride_

const double *	vertices_

index_t	nb_vertices_

index_t	nb_cells_

const signed_index_t *	cell_to_v_

const signed_index_t *	cell_to_cell_

vector< signed_index_t >	v_to_cell_

vector< signed_index_t >	cicl_

bool	is_locked_

PackedArrays	neighbors_

bool	store_neighbors_

index_t	default_nb_neighbors_

bool	do_reorder_
	If true, uses BRIO reordering (in some implementations)

const Mesh *	constraints_

bool	refine_

double	quality_

bool	store_cicl_
	It true, circular incident tet lists are stored.

bool	keep_infinite_
	If true, infinite vertex and infinite simplices are kept.

index_t	nb_finite_cells_
	If keep_infinite_ is true, then finite cells are 0..nb_finite_cells_-1 and infinite cells are nb_finite_cells_ ... nb_cells_.

bool	keep_regions_

Related Functions inherited from GEO::Delaunay
typedef SmartPointer< Delaunay >	Delaunay_var
	Smart pointer that refers to a Delaunay object.

typedef Factory1< Delaunay, coord_index_t >	DelaunayFactory
	Delaunay Factory. More...

Detailed Description

Multithreaded implementation of Delaunay in 3d with optional periodic boundary conditions.

Periodicity is taken into account by detecting the vertices with Voronoi cells that straddle the boundary and duplicating them as need be (with an additional propagation to have the correct neighborhoods).

See also: Delaunay3d, ParallelDelaunay3d

Definition at line 68 of file periodic_delaunay_3d.h.

Constructor & Destructor Documentation

◆ PeriodicDelaunay3d() [1/2]

GEO::PeriodicDelaunay3d::PeriodicDelaunay3d	(	bool	periodic,
		double	period = `1.0`
	)

Constructs a new PeriodicDelaunay3d.

Parameters

[in]	periodic	if true, constructs a periodic triangulation.
[in]	period	the edge length of the periodic domain.

◆ PeriodicDelaunay3d() [2/2]

GEO::PeriodicDelaunay3d::PeriodicDelaunay3d ( const vec3 & period )

Constructs a new PeriodicDelaunay3d.

Parameters

[in] period the edge lengths along x,y,z in the periodic domain

Member Function Documentation

◆ compress()

index_t GEO::PeriodicDelaunay3d::compress ( bool shrink = true )

protected

Removes unused tetrahedra.

Returns: the final number of tetrahedra.

Parameters

[in] shrink if true, then array space is shrunk to fit the new number of tetrahedra.

◆ copy_Laguerre_cell_facet_from_Delaunay()

GEO::index_t GEO::PeriodicDelaunay3d::copy_Laguerre_cell_facet_from_Delaunay	(	GEO::index_t	i,
		const GEO::vec3 &	Pi,
		double	wi,
		double	Pi_len2,
		GEO::index_t	t,
		ConvexCell &	C,
		IncidentTetrahedra &	W
	)		const

protected

Copies a Laguerre cell facet from the triangulation.

Parameters

[in]	i	the index of the vertex of which the Laguerre cell should be computed.
[in]	Pi	the coordinates of vertex `i`
[in]	wi	the weight associated to vertex `i`
[in]	Pi_len2	the squared length of vertex `i` (considered as a vector).
[in]	t	a tetrahedron of the Delaunay triangulation, incident to vertex i
[out]	C	the Laguerre cell.
[in,out]	W	a reference to a PeriodicDelaunay3d::IncidentTetrahedra

Returns: the local index of vertex i within tetrahedron t

◆ copy_Laguerre_cell_from_Delaunay() [1/2]

void GEO::PeriodicDelaunay3d::copy_Laguerre_cell_from_Delaunay	(	GEO::index_t	i,
		ConvexCell &	C
	)		const

inline

Copies a Laguerre cell from the triangulation.

Delaunay neigbhors are stored in ConvexCell vertex global indices.

Parameters

[in]	i	the index of the vertex of which the Laguerre cell should be computed.
[out]	C	the Laguerre cell.

Definition at line 249 of file periodic_delaunay_3d.h.

◆ copy_Laguerre_cell_from_Delaunay() [2/2]

void GEO::PeriodicDelaunay3d::copy_Laguerre_cell_from_Delaunay	(	GEO::index_t	i,
		ConvexCell &	C,
		IncidentTetrahedra &	W
	)		const

Copies a Laguerre cell from the triangulation.

Delaunay neigbhors are stored in ConvexCell vertex global indices.

Parameters

[in]	i	the index of the vertex of which the Laguerre cell should be computed.
[out]	C	the Laguerre cell.
[in,out]	W	a reference to a PeriodicDelaunay3d::IncidentTetrahedra

◆ get_incident_tets()

void GEO::PeriodicDelaunay3d::get_incident_tets	(	index_t	v,
		IncidentTetrahedra &	W
	)		const

computes the set of tetrahedra that are incident to a vertex.

Parameters

[in]	v	the index of the vertex.
[in,out]	W	a reference to a PeriodicDelaunay3d::IncidentTetrahedra. On exit it contains the list of incident tets.

◆ get_periodic_vertex_instances_to_create()

index_t GEO::PeriodicDelaunay3d::get_periodic_vertex_instances_to_create	(	index_t	v,
		ConvexCell &	C,
		bool	use_instance[27],
		bool &	cell_is_on_boundary,
		bool &	cell_is_outside_cube,
		IncidentTetrahedra &	W
	)

protected

Computes the periodic vertex instances that should be generated.

Parameters

[in]	v	vertex index, in 0..nb_vertices_non_periodic_-1
[out]	C	the clipped Laguerre cell
[out]	use_instance	the array of booleans that indicates which instance should be generated.
[out]	cell_is_on_boundary	true if the cell has an intersection with the cube, false otherwise.
[out]	cell_is_outside_cube	true if the cell is completely outside the cube, false otherwise.
[in,out]	W	a reference to a PeriodicDelaunay3d::IncidentTetrahedra

Returns: the number of instances to generate.

◆ has_empty_cells()

bool GEO::PeriodicDelaunay3d::has_empty_cells ( ) const

inline

Tests whether the Laguerre diagram has empty cells.

If the Laguerre diagram has empty cells, then computation is stopped, and all the queries on the Laguerre diagram will not work (including the non-empty cells).

Return values

true	if the Laguerre diagram has empty cells.
false	otherwise.

Definition at line 265 of file periodic_delaunay_3d.h.

◆ insert_vertices()

void GEO::PeriodicDelaunay3d::insert_vertices	(	index_t	b,
		index_t	e
	)

protected

Insert vertices from reorder_[b] to reorder_[e-1].

If an empty cells is detected, has_empty_cells_ is set and the function exits.

◆ nb_threads()

index_t GEO::PeriodicDelaunay3d::nb_threads ( ) const

inlineprotected

Gets the number of threads.

Returns: the number of threads.

Definition at line 387 of file periodic_delaunay_3d.h.

◆ nearest_vertex()

index_t GEO::PeriodicDelaunay3d::nearest_vertex ( const double * p ) const

overridevirtual

Computes the nearest vertex from a query point.

Parameters

[in] p query point

Returns: the index of the nearest vertex

Reimplemented from GEO::Delaunay.

◆ save_cells()

void GEO::PeriodicDelaunay3d::save_cells	(	const std::string &	basename,
		bool	clipped
	)

Saves the cells in an Alias-Wavefront file.

Parameters

[in]	basename	the basename of the file. Filename is basename_callid.obj, where callid is the number of times the function was invoked.
[in]	clipped	if true, clip the cells by the domain without saving, else keep the cells as is.

◆ set_BRIO_levels()

void GEO::PeriodicDelaunay3d::set_BRIO_levels ( const vector< index_t > & levels )

overridevirtual

Specifies the bounds of each level to be used when hierarchic ordering is specified from outside.

This function is used by some implementation when set_reorder(false) was called.

Parameters

[in] levels specifies the bounds of each level used by the hierarchical index. First level has indices between levels[0] ... levels[1].

Reimplemented from GEO::Delaunay.

◆ set_vertices()

void GEO::PeriodicDelaunay3d::set_vertices	(	index_t	nb_vertices,
		const double *	vertices
	)

overridevirtual

Sets the vertices of this Delaunay, and recomputes the cells.

Parameters

[in]	nb_vertices	number of vertices
[in]	vertices	a pointer to the coordinates of the vertices, as a contiguous array of doubles

Note: compute() needs to be called after.

Reimplemented from GEO::Delaunay.

◆ set_weights()

void GEO::PeriodicDelaunay3d::set_weights ( const double * weights )

Sets the weights.

Parameters

[in] weights pointer to the array of weights. Size is the number of real vertices, i.e., the parameter nb_vertices passed to set_vertices().

Note: compute() needs to be called after.

◆ thread()

PeriodicDelaunay3dThread* GEO::PeriodicDelaunay3d::thread ( index_t t )

inlineprotected

Gets a thread by index.

Parameters

[in] t the index of the thread, in 0..nb_threads()-1

Returns: a pointer to the t-th thread.

Definition at line 376 of file periodic_delaunay_3d.h.

◆ update_cicl()

void GEO::PeriodicDelaunay3d::update_cicl ( )

overrideprotectedvirtual

Updates the circular incident cell lists.

Used by next_around_vertex().

Reimplemented from GEO::Delaunay.

◆ update_v_to_cell()

void GEO::PeriodicDelaunay3d::update_v_to_cell ( )

overrideprotectedvirtual

Stores for each vertex v a cell incident to v.

if update_periodic_v_to_cell_ is set to true, also updates the map periodic_v_to_cell_ that maps each virtual vertex to a tet incident to it.

Reimplemented from GEO::Delaunay.

◆ use_exact_predicates_for_convex_cell()

void GEO::PeriodicDelaunay3d::use_exact_predicates_for_convex_cell ( bool x )

inline

Use exact predicates in convex cell computations.

Convex cell computations are used in periodic mode for determining the cells that straddle the domain boundary.

Parameters

[in] x true if exact predicates should be used (default), false otherwise.

Definition at line 166 of file periodic_delaunay_3d.h.

◆ vertex()

vec3 GEO::PeriodicDelaunay3d::vertex ( index_t v ) const

inline

Gets a vertex by index.

Parameters

[in] v a vertex index. Can be a virtual vertex index when in periodic mode.

Returns: the 3d point associated with the vertex. In periodic mode, if v is a virtual vertex, then the translation is applied to the real vertex.

Definition at line 178 of file periodic_delaunay_3d.h.

◆ weight()

double GEO::PeriodicDelaunay3d::weight ( index_t v ) const

inline

Gets a weight by index.

Parameters

[in] v a vertex index. Can be a virtual vertex index in periodic mode.

Returns: the weight associated with the vertex.

Definition at line 198 of file periodic_delaunay_3d.h.

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

geogram/delaunay/periodic_delaunay_3d.h

Classes

Public Member Functions

Protected Member Functions

Friends

Additional Inherited Members

Detailed Description

Constructor & Destructor Documentation

◆ PeriodicDelaunay3d() [1/2]

◆ PeriodicDelaunay3d() [2/2]

Member Function Documentation

◆ compress()

◆ copy_Laguerre_cell_facet_from_Delaunay()

◆ copy_Laguerre_cell_from_Delaunay() [1/2]

◆ copy_Laguerre_cell_from_Delaunay() [2/2]

◆ get_incident_tets()

◆ get_periodic_vertex_instances_to_create()

◆ has_empty_cells()

◆ insert_vertices()

◆ nb_threads()

◆ nearest_vertex()

◆ save_cells()

◆ set_BRIO_levels()

◆ set_vertices()

◆ set_weights()

◆ thread()

◆ update_cicl()

◆ update_v_to_cell()

◆ use_exact_predicates_for_convex_cell()

◆ vertex()

◆ weight()