Interface implemented in MOAB which provides memory for mesh reading utilities. More...

#include <ReadUtilIface.hpp>

Inheritance diagram for moab::ReadUtilIface:

Public Member Functions
	ReadUtilIface ()
	Constructor. More...

virtual	~ReadUtilIface ()
	Destructor. More...

virtual ErrorCode	get_node_coords (const int num_arrays, const int num_nodes, const int preferred_start_id, EntityHandle &actual_start_handle, std::vector< double * > &arrays, const int sequence_size=-1)=0
	Given a requested number of vertices and number of coordinates, returns memory space which will be used to store vertex coordinates and information about what handles those new vertices are assigned; allows direct read of coordinate data into memory. More...

virtual ErrorCode	get_element_connect (const int num_elements, const int verts_per_element, const EntityType mdb_type, const int preferred_start_id, EntityHandle &actual_start_handle, EntityHandle *&array, int sequence_size=-1)=0
	Given requested number of elements, element type, and number of elements, returns pointer to memory space allocated to store connectivity of those elements; allows direct read of connectivity data into memory. More...

virtual ErrorCode	gather_related_ents (Range &partition, Range &related_ents, EntityHandle *file_set=NULL)=0
	Gather entities related to those in the partition Gather entities related to those in the input partition. Related means down-adjacent to, contained in, etc. More...

virtual ErrorCode	create_entity_sets (EntityID num_sets, const unsigned *set_flags, EntityID preffered_start_id, EntityHandle &actual_start_handle)=0

virtual ErrorCode	update_adjacencies (const EntityHandle start_handle, const int number_elements, const int number_vertices_per_element, const EntityHandle *conn_array)=0
	Update adjacencies Given information about new elements, adjacency information will be updated in MOAB. Think of this function as a way of Readers telling MOAB what elements are new because we aren't using the Interface to create elements. More...

virtual ErrorCode	get_ordered_vertices (EntityHandle bound_ents, int sense, int num_bound, int dim, EntityHandle *bound_verts, EntityType &etype)=0
	Given an ordered list of bounding entities and the sense of those entities, return an ordered list of vertices. More...

virtual ErrorCode	assign_ids (Tag id_tag, const Range &ents, int start=0)=0
	Assign sequential IDS to entities in range and store IDs in tag. More...

virtual ErrorCode	assign_ids (Tag id_tag, const EntityHandle *ents, size_t num_ents, int start=0)=0
	Assign to each entity in an array the ID that is its position in the array plus the value of 'start'. For any non-zero handles in the array, store the ID value in the passed tag. More...

virtual ErrorCode	create_gather_set (EntityHandle &gather_set)=0
	Create a new gather set with tag GATHER_SET. More...

virtual ErrorCode	get_gather_set (EntityHandle &gather_set)=0
	Get entity handle of an existing gather set. More...

Static Public Member Functions
static void	reorder (const int order, EntityHandle conn, int num_elem, int node_per_elem)
	Re-order incoming element connectivity. More...

Detailed Description

Interface implemented in MOAB which provides memory for mesh reading utilities.

Examples: ComputeTriDual.cpp.

Definition at line 30 of file ReadUtilIface.hpp.

Constructor & Destructor Documentation

◆ ReadUtilIface()

moab::ReadUtilIface::ReadUtilIface ( )

inline

Constructor.

Definition at line 34 of file ReadUtilIface.hpp.

34 {}

◆ ~ReadUtilIface()

virtual moab::ReadUtilIface::~ReadUtilIface ( )

inlinevirtual

Destructor.

Definition at line 37 of file ReadUtilIface.hpp.

37 {}

Member Function Documentation

◆ assign_ids() [1/2]

virtual ErrorCode moab::ReadUtilIface::assign_ids	(	Tag	id_tag,
		const EntityHandle *	ents,
		size_t	num_ents,
		int	start = `0`
	)

pure virtual

Assign to each entity in an array the ID that is its position in the array plus the value of 'start'. For any non-zero handles in the array, store the ID value in the passed tag.

Implemented in moab::ReadUtil.

◆ assign_ids() [2/2]

virtual ErrorCode moab::ReadUtilIface::assign_ids	(	Tag	id_tag,
		const Range &	ents,
		int	start = `0`
	)

pure virtual

Assign sequential IDS to entities in range and store IDs in tag.

Implemented in moab::ReadUtil.

Referenced by moab::ReadSms::add_entities(), moab::ReadNASTRAN::assign_ids(), moab::ReadMCNP5::create_elements(), moab::NestedRefine::create_hm_storage_single_level(), moab::ReadIDEAS::create_vertices(), moab::ReadMCNP5::create_vertices(), moab::ReadSmf::load_file(), moab::ReadSTL::load_file(), moab::ReadTetGen::load_file(), moab::Tqdcfr::load_file(), moab::ReadSms::load_file_impl(), moab::ReadNCDF::read_elements(), moab::ReadNCDF::read_nodes(), and moab::ReadVtk::store_file_ids().

◆ create_entity_sets()

virtual ErrorCode moab::ReadUtilIface::create_entity_sets	(	EntityID	num_sets,
		const unsigned *	set_flags,
		EntityID	preffered_start_id,
		EntityHandle &	actual_start_handle
	)

pure virtual

Implemented in moab::ReadUtil.

Referenced by moab::BVHTree::convert_tree(), and moab::ReadHDF5::read_sets().

◆ create_gather_set()

virtual ErrorCode moab::ReadUtilIface::create_gather_set ( EntityHandle & gather_set )

pure virtual

Create a new gather set with tag GATHER_SET.

Implemented in moab::ReadUtil.

Referenced by moab::NCHelperGCRM::create_mesh(), moab::NCHelperHOMME::create_mesh(), and moab::NCHelperMPAS::create_mesh().

◆ gather_related_ents()

virtual ErrorCode moab::ReadUtilIface::gather_related_ents	(	Range &	partition,
		Range &	related_ents,
		EntityHandle *	file_set = `NULL`
	)

pure virtual

Gather entities related to those in the partition Gather entities related to those in the input partition. Related means down-adjacent to, contained in, etc.

Parameters

partition	Entities for which to gather related entities
related_ents	Related entities
file_set	If non-NULL, entity sets contained in this set will be checked; otherwise, all sets in the instance will be checked

Implemented in moab::ReadUtil.

Referenced by moab::ReadParallel::delete_nonlocal_entities().

◆ get_element_connect()

virtual ErrorCode moab::ReadUtilIface::get_element_connect	(	const int	num_elements,
		const int	verts_per_element,
		const EntityType	mdb_type,
		const int	preferred_start_id,
		EntityHandle &	actual_start_handle,
		EntityHandle *&	array,
		int	sequence_size = `-1`
	)

pure virtual

Given requested number of elements, element type, and number of elements, returns pointer to memory space allocated to store connectivity of those elements; allows direct read of connectivity data into memory.

Parameters

num_elements	Number of elements being requested
verts_per_element	Number of vertices per element (incl. higher-order nodes)
mdb_type	Element type
preferred_start_id	Preferred integer id for first element
actual_start_handle	Actual integer id for first element (returned)
array	Pointer to memory allocated for storing connectivity for these elements
sequence_size	If specified, allocate this sequence size instead of SequenceManager::DEFAULT_VERTEX_SEQUENCE_SIZE

Returns: status Success/failure of this call

Implemented in moab::ReadUtil.

Referenced by moab::ReadVtk::allocate_elements(), create_coarse_mesh(), moab::ReadMCNP5::create_elements(), moab::ReadCGNS::create_elements(), moab::ReadGmsh::create_elements(), create_fine_mesh(), moab::NCHelperMPAS::create_gather_set_cells(), moab::NCHelperGCRM::create_gather_set_edges(), moab::NCHelperMPAS::create_gather_set_edges(), moab::NestedRefine::create_hm_storage_single_level(), moab::NCHelperESMF::create_local_cells(), moab::NCHelperMPAS::create_local_cells(), moab::NCHelperGCRM::create_local_edges(), moab::NCHelperMPAS::create_local_edges(), moab::NCHelperDomain::create_mesh(), moab::NCHelperHOMME::create_mesh(), moab::NCHelperScrip::create_mesh(), create_mesh_no_holes(), create_mesh_with_holes(), moab::NCHelperGCRM::create_padded_gather_set_cells(), moab::NCHelperMPAS::create_padded_gather_set_cells(), moab::NCHelperESMF::create_padded_local_cells(), moab::NCHelperGCRM::create_padded_local_cells(), moab::NCHelperMPAS::create_padded_local_cells(), IntxUtilsCSLAM::create_span_quads(), moab::SpectralMeshTool::create_spectral_elems(), moab::IntxUtils::deep_copy_set_with_quads(), iMOAB_CreateElements(), moab::ReadSmf::load_file(), moab::ReadSTL::load_file(), moab::ReadSms::load_file_impl(), main(), moab::ReadDamsel::process_ent_info(), moab::ReadTetGen::read_elem_file(), moab::ReadABAQUS::read_element_list(), moab::ReadNCDF::read_elements(), moab::ReadTemplate::read_elements(), moab::Tqdcfr::read_elements(), moab::ReadHDF5::read_elems(), and moab::ReadHDF5::read_node_adj_elems().

◆ get_gather_set()

virtual ErrorCode moab::ReadUtilIface::get_gather_set ( EntityHandle & gather_set )

pure virtual

Get entity handle of an existing gather set.

Implemented in moab::ReadUtil.

◆ get_node_coords()

virtual ErrorCode moab::ReadUtilIface::get_node_coords	(	const int	num_arrays,
		const int	num_nodes,
		const int	preferred_start_id,
		EntityHandle &	actual_start_handle,
		std::vector< double * > &	arrays,
		const int	sequence_size = `-1`
	)

pure virtual

Given a requested number of vertices and number of coordinates, returns memory space which will be used to store vertex coordinates and information about what handles those new vertices are assigned; allows direct read of coordinate data into memory.

Parameters

num_arrays	Number of node position arrays requested
num_nodes	Number of nodes
preferred_start_id	Preferred integer id starting value
actual_start_handle	Actual starting id value
arrays	STL vector of double*'s, point to memory storage to be used for these vertices
sequence_size	If specified, allocate this sequence size instead of SequenceManager::DEFAULT_VERTEX_SEQUENCE_SIZE

Returns: status Success/failure of this call

Implemented in moab::ReadUtil.

Referenced by moab::ReadVtk::allocate_vertices(), create_coarse_mesh(), moab::NCHelperGCRM::create_gather_set_vertices(), moab::NCHelperMPAS::create_gather_set_vertices(), moab::NestedRefine::create_hm_storage_single_level(), moab::ReadABAQUS::create_instance_of_part(), moab::NCHelperESMF::create_local_vertices(), moab::NCHelperGCRM::create_local_vertices(), moab::NCHelperMPAS::create_local_vertices(), moab::NCHelperDomain::create_mesh(), moab::NCHelperHOMME::create_mesh(), moab::NCHelperScrip::create_mesh(), create_mesh_no_holes(), create_mesh_with_holes(), IntxUtilsCSLAM::create_span_quads(), moab::Core::create_vertices(), moab::ReadIDEAS::create_vertices(), moab::ReadMCNP5::create_vertices(), moab::IntxUtils::deep_copy_set_with_quads(), moab::ReadCGNS::load_file(), moab::ReadGmsh::load_file(), moab::ReadNASTRAN::load_file(), moab::ReadSmf::load_file(), moab::ReadSTL::load_file(), moab::ReadSms::load_file_impl(), moab::ReadDamsel::process_ent_info(), moab::ReadTetGen::read_node_file(), moab::ReadABAQUS::read_node_list(), moab::ReadHDF5::read_nodes(), moab::ReadNCDF::read_nodes(), moab::Tqdcfr::read_nodes(), moab::ReadCCMIO::read_vertices(), and moab::ReadTemplate::read_vertices().

◆ get_ordered_vertices()

virtual ErrorCode moab::ReadUtilIface::get_ordered_vertices	(	EntityHandle *	bound_ents,
		int *	sense,
		int	num_bound,
		int	dim,
		EntityHandle *	bound_verts,
		EntityType &	etype
	)

pure virtual

Given an ordered list of bounding entities and the sense of those entities, return an ordered list of vertices.

Implemented in moab::ReadUtil.

Referenced by moab::ReadSms::load_file_impl().

◆ reorder()

void moab::ReadUtilIface::reorder	(	const int *	order,
		EntityHandle *	conn,
		int	num_elem,
		int	node_per_elem
	)

inlinestatic

Re-order incoming element connectivity.

Permute the connectivity of each element such that the node order is that of MBCN rather than the target file format.

Parameters

order	The permutation to use. Must be an array of 'node_per_elem' integers and be a permutation of the values [0..node_per_elem-1]. Such that for a single element: mbcn_conn[order[i]] == target_conn[i]
conn	The connectivity array to re-order
num_elem	The number of elements in the connectivity array
node_per_elem	The number of nodes in each element's connectivity list.

Definition at line 147 of file ReadUtilIface.hpp.

 {
  std::vector< EntityHandle > elem( node_per_elem );
  EntityHandle* const end = conn + num_elem * node_per_elem;
  while( conn != end )
  {
  std::copy( conn, conn + node_per_elem, elem.begin() );
  for( int j = 0; j < node_per_elem; ++j )
  conn[order[j]] = elem[j];
  conn += node_per_elem;
  }
 }

Referenced by moab::ReadNCDF::read_elements().

◆ update_adjacencies()

virtual ErrorCode moab::ReadUtilIface::update_adjacencies	(	const EntityHandle	start_handle,
		const int	number_elements,
		const int	number_vertices_per_element,
		const EntityHandle *	conn_array
	)

pure virtual

Update adjacencies Given information about new elements, adjacency information will be updated in MOAB. Think of this function as a way of Readers telling MOAB what elements are new because we aren't using the Interface to create elements.

Parameters

start_handle	Handle of first new element
number_elements	Number of new elements
number_vertices_per_element	Number of vertices in each new element
conn_array	Connectivity of new elements

Returns: status Success/failure of this call

Implemented in moab::ReadUtil.

Referenced by moab::ReadCGNS::create_elements(), moab::ReadGmsh::create_elements(), create_fine_mesh(), moab::IntxUtils::deep_copy_set_with_quads(), iMOAB_CreateElements(), moab::ReadSmf::load_file(), moab::ReadSTL::load_file(), moab::ReadNCDF::read_elements(), moab::ReadTemplate::read_elements(), moab::Tqdcfr::read_elements(), moab::ReadHDF5::read_elems(), moab::ReadHDF5::read_node_adj_elems(), moab::ParallelComm::unpack_entities(), moab::ReadHDF5::update_connectivity(), moab::ReadVtk::vtk_create_structured_elems(), and moab::ReadVtk::vtk_read_unstructured_grid().

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

ReadUtilIface.hpp

Public Member Functions

Static Public Member Functions

Detailed Description

Constructor & Destructor Documentation

◆ ReadUtilIface()

◆ ~ReadUtilIface()

Member Function Documentation

◆ assign_ids() [1/2]

◆ assign_ids() [2/2]

◆ create_entity_sets()

◆ create_gather_set()

◆ gather_related_ents()

◆ get_element_connect()

◆ get_gather_set()

◆ get_node_coords()

◆ get_ordered_vertices()

◆ reorder()

◆ update_adjacencies()