moab::ReadRTT Class Reference

#include <ReadRTT.hpp>

Inheritance diagram for moab::ReadRTT:

Collaboration diagram for moab::ReadRTT:

Classes
struct	boundary
struct	cell
struct	facet
struct	headerData
struct	node
struct	side
struct	tet

Public Member Functions
ErrorCode	load_file (const char *file_name, const EntityHandle *file_set, const FileOptions &opts, const SubsetList *subset_list=0, const Tag *file_id_tag=0)
	Load mesh from a file. More...
	ReadRTT (Interface *impl=NULL)
virtual	~ReadRTT ()
ErrorCode	read_tag_values (const char *file_name, const char *tag_name, const FileOptions &opts, std::vector< int > &tag_values_out, const SubsetList *subset_list=0)
	Read tag values from a file. More...
Public Member Functions inherited from moab::ReaderIface
virtual	~ReaderIface ()

Static Public Member Functions
static ReaderIface *	factory (Interface *)

Private Member Functions
ErrorCode	generate_topology (std::vector< side > side_data, std::vector< cell > cell_data, std::map< int, EntityHandle > &surface_map)
void	generate_parent_child_links (int num_ents[4], std::vector< EntityHandle > entity_map[4], std::vector< side > side_data, std::vector< cell > cell_data)
void	set_surface_senses (int num_ents[4], std::vector< EntityHandle > entity_map[4], std::vector< side > side_data, std::vector< cell > cell_data)
ErrorCode	setup_group_data (std::vector< EntityHandle > entity_map[4])
EntityHandle	create_group (std::string group_name, int id)
ErrorCode	build_moab (std::vector< node > node_data, std::vector< facet > facet_data, std::vector< tet > tet_data, std::map< int, EntityHandle > surface_map)
ErrorCode	read_header (const char *filename)
ErrorCode	read_sides (const char *filename, std::vector< side > &side_data)
ErrorCode	read_cells (const char *filename, std::vector< cell > &cell_data)
ErrorCode	read_nodes (const char *filename, std::vector< node > &node_data)
ErrorCode	read_facets (const char *filename, std::vector< facet > &facet_data)
ErrorCode	read_tets (const char *filename, std::vector< tet > &tet_data)
ErrorCode	get_header_data (std::ifstream &input_file)
cell	get_cell_data (std::string celldata)
side	get_side_data (std::string sidedata)
node	get_node_data (std::string nodedata)
facet	get_facet_data (std::string facetdata)
tet	get_tet_data (std::string tetdata)
std::vector< std::string >	split_string (std::string string_to_split, char split_char)
boundary	split_name (std::string atilla_cellname)
int	count_sides (std::vector< side > side_data, std::vector< int > &surface_numbers)

Private Attributes
headerData	header_data
ReadUtilIface *	readMeshIface
Interface *	MBI
GeomTopoTool *	myGeomTool
Tag	geom_tag
Tag	id_tag
Tag	name_tag
Tag	category_tag
Tag	faceting_tol_tag

Detailed Description

Definition at line 112 of file ReadRTT.hpp.

Constructor & Destructor Documentation

ReadRTT()

ReadRTT::ReadRTT

(

Interface *

impl = NULL

)

Definition at line 56 of file ReadRTT.cpp.

 : MBI( impl ), geom_tag( 0 ), id_tag( 0 ), name_tag( 0 ), category_tag( 0 ), faceting_tol_tag( 0 )
{
 assert( NULL != impl );
 myGeomTool = new GeomTopoTool( impl );
 MBI->query_interface( readMeshIface );
 assert( NULL != readMeshIface );
 
 // this section copied from ReadCGM initalisation
 int negone = -1;
 double zero = 0.;
 ErrorCode rval;
 rval = MBI->tag_get_handle( GEOM_DIMENSION_TAG_NAME, 1, MB_TYPE_INTEGER, geom_tag, MB_TAG_SPARSE | MB_TAG_CREAT,
 &negone );MB_CHK_ERR_CONT(rval);
 id_tag = MBI->globalId_tag();
 rval = MBI->tag_get_handle( NAME_TAG_NAME, NAME_TAG_SIZE, MB_TYPE_OPAQUE, name_tag, MB_TAG_SPARSE | MB_TAG_CREAT );MB_CHK_ERR_CONT(rval);
 rval = MBI->tag_get_handle( CATEGORY_TAG_NAME, CATEGORY_TAG_SIZE, MB_TYPE_OPAQUE, category_tag,
 MB_TAG_SPARSE | MB_TAG_CREAT );MB_CHK_ERR_CONT(rval);
 rval =
 MBI->tag_get_handle( "FACETING_TOL", 1, MB_TYPE_DOUBLE, faceting_tol_tag, MB_TAG_SPARSE | MB_TAG_CREAT, &zero );MB_CHK_ERR_CONT(rval);
}

References category_tag, CATEGORY_TAG_NAME, CATEGORY_TAG_SIZE, ErrorCode, faceting_tol_tag, GEOM_DIMENSION_TAG_NAME, geom_tag, moab::Interface::globalId_tag(), id_tag, MB_CHK_ERR_CONT, MB_TAG_CREAT, MB_TAG_SPARSE, MB_TYPE_DOUBLE, MB_TYPE_INTEGER, MB_TYPE_OPAQUE, MBI, myGeomTool, name_tag, NAME_TAG_NAME, NAME_TAG_SIZE, moab::Interface::query_interface(), readMeshIface, and moab::Interface::tag_get_handle().

Referenced by factory().

~ReadRTT()

ReadRTT::~ReadRTT ( )

virtual

Definition at line 79 of file ReadRTT.cpp.

{
 if( readMeshIface )
 {
 MBI->release_interface( readMeshIface );
 readMeshIface = 0;
 }
 
 delete myGeomTool;
}

References MBI, myGeomTool, readMeshIface, and moab::Interface::release_interface().

Member Function Documentation

build_moab()

ErrorCode ReadRTT::build_moab ( std::vector< node >  node_data, std::vector< facet >  facet_data, std::vector< tet >  tet_data, std::map< int, EntityHandle >  surface_map  )

private

Builds the full MOAB representation of the data, making vertices from coordinates, triangles from vertices and tets from the same vertices. Tags appropriate to each dataset collection are applied, triangles are tagged with the surface id and side id they belong to, as well as tagging the surface with the same data. Tets are similarly tagged only with the Material number

Parameters

node_data	the node data
facet_data,the	triangles in the problem
tet_data,the	tets in the problem
surface_map,the	map of surface meshset and id numbers

Returns

moab::ErrorCode

Definition at line 239 of file ReadRTT.cpp.

{
 
 ErrorCode rval; // reusable return value
 EntityHandle file_set; // the file handle
 // create the file set
 rval = MBI->create_meshset( MESHSET_SET, file_set );
 if( MB_SUCCESS != rval ) return rval;
 
 // create the vertices
 EntityHandle handle;
 std::vector< node >::iterator it; // iterate over the nodes
 Range mb_coords; // range of coordinates
 for( it = node_data.begin(); it != node_data.end(); ++it )
 {
 node tmp = *it;
 double coords[3] = { tmp.x, tmp.y, tmp.z };
 rval = MBI->create_vertex( coords, handle );
 if( MB_SUCCESS != rval ) return rval;
 mb_coords.insert( handle ); // inesert handle into the coordinate range
 }
 
 // add verts to set
 rval = MBI->add_entities( file_set, mb_coords );
 
 // create sense tag
 Tag side_id_tag, surface_number_tag;
 // int zero = 0;
 rval = MBI->tag_get_handle( "SIDEID_TAG", 1, MB_TYPE_INTEGER, side_id_tag, MB_TAG_SPARSE | MB_TAG_CREAT );
 rval =
 MBI->tag_get_handle( "SURFACE_NUMBER", 1, MB_TYPE_INTEGER, surface_number_tag, MB_TAG_SPARSE | MB_TAG_CREAT );
 
 // create the facets
 EntityHandle triangle;
 std::vector< facet >::iterator it_f;
 // range of triangles
 Range mb_tris;
 // loop over the facet data
 for( it_f = facet_data.begin(); it_f != facet_data.end(); ++it_f )
 {
 facet tmp = *it_f;
 // get the nodes for the triangle
 EntityHandle tri_nodes[3] = { mb_coords[tmp.connectivity[0] - 1], mb_coords[tmp.connectivity[1] - 1],
 mb_coords[tmp.connectivity[2] - 1] };
 // create a triangle element
 rval = MBI->create_element( MBTRI, tri_nodes, 3, triangle );
 // tag in side id on the triangle
 rval = MBI->tag_set_data( side_id_tag, &triangle, 1, &tmp.side_id );
 // tag the surface number on the triangle
 rval = MBI->tag_set_data( surface_number_tag, &triangle, 1, &tmp.surface_number );
 // insert vertices and triangles into the appropriate surface meshset
 EntityHandle meshset_handle = surface_map[tmp.surface_number];
 // also set surface tag
 rval = MBI->tag_set_data( side_id_tag, &meshset_handle, 1, &tmp.side_id );
 rval = MBI->tag_set_data( surface_number_tag, &meshset_handle, 1, &tmp.surface_number );
 // add vertices to the mesh
 rval = MBI->add_entities( meshset_handle, &( *tri_nodes ), 3 );
 // add triangles to the meshset
 rval = MBI->add_entities( meshset_handle, &triangle, 1 );
 // ineter triangles into large run
 mb_tris.insert( triangle );
 }
 // add tris to set to fileset
 rval = MBI->add_entities( file_set, mb_tris );
 
 // create material number tag
 Tag mat_num_tag;
 // int zero = 0;
 rval = MBI->tag_get_handle( "MATERIAL_NUMBER", 1, MB_TYPE_INTEGER, mat_num_tag, MB_TAG_SPARSE | MB_TAG_CREAT );
 
 // create the tets
 EntityHandle tetra; // handle for a specific tet
 std::vector< tet >::iterator it_t;
 Range mb_tets;
 // loop over all tets
 for( it_t = tet_data.begin(); it_t != tet_data.end(); ++it_t )
 {
 tet tmp = *it_t;
 // get the handles for the tet
 EntityHandle tet_nodes[4] = { mb_coords[tmp.connectivity[0] - 1], mb_coords[tmp.connectivity[1] - 1],
 mb_coords[tmp.connectivity[2] - 1], mb_coords[tmp.connectivity[3] - 1] };
 // create the tet
 rval = MBI->create_element( MBTET, tet_nodes, 4, tetra );
 int mat_number = tmp.material_number;
 // tag the tet with the material number
 rval = MBI->tag_set_data( mat_num_tag, &tetra, 1, &mat_number );
 // set the tag data
 mb_tets.insert( tetra );
 }
 // add tris to set
 rval = MBI->add_entities( file_set, mb_tets );
 
 return MB_SUCCESS;
}

References moab::Interface::add_entities(), moab::ReadRTT::facet::connectivity, moab::ReadRTT::tet::connectivity, moab::Interface::create_element(), moab::Interface::create_meshset(), moab::Interface::create_vertex(), ErrorCode, moab::Range::insert(), moab::ReadRTT::tet::material_number, MB_SUCCESS, MB_TAG_CREAT, MB_TAG_SPARSE, MB_TYPE_INTEGER, MBI, MBTET, MBTRI, MESHSET_SET, moab::ReadRTT::facet::side_id, moab::ReadRTT::facet::surface_number, moab::Interface::tag_get_handle(), moab::Interface::tag_set_data(), moab::ReadRTT::node::x, moab::ReadRTT::node::y, and moab::ReadRTT::node::z.

Referenced by load_file().

count_sides()

int moab::ReadRTT::count_sides ( std::vector< side >  side_data, std::vector< int > &  surface_numbers  )

private

Count the number of unique surface numbers in the dataset, also get list of surface numbers

Parameters

side_data,collection	of all the side data in the mesh
surface_numbers,collection	of surface numbers

returns the number of surface numbers

create_group()

EntityHandle ReadRTT::create_group ( std::string  group_name, int  id  )

private

create a group of a given name, mustkeep track of id

Parameters

group_name,name	of the group
id,integer	id number

returns the entity handle of the group

Definition at line 917 of file ReadRTT.cpp.

{
 ErrorCode rval;
 // category tags
 const char geom_categories[][CATEGORY_TAG_SIZE] = { "Vertex\0", "Curve\0", "Surface\0", "Volume\0", "Group\0" };
 
 EntityHandle handle;
 rval = MBI->create_meshset( MESHSET_SET, handle );
 if( MB_SUCCESS != rval ) return rval;
 
 rval = MBI->tag_set_data( name_tag, &handle, 1, group_name.c_str() );
 if( MB_SUCCESS != rval ) return MB_FAILURE;
 
 rval = MBI->tag_set_data( id_tag, &handle, 1, &id );
 if( MB_SUCCESS != rval ) return MB_FAILURE;
 
 rval = MBI->tag_set_data( category_tag, &handle, 1, &geom_categories[4] );
 if( MB_SUCCESS != rval ) return MB_FAILURE;
 
 return handle;
}

References category_tag, CATEGORY_TAG_SIZE, moab::Interface::create_meshset(), ErrorCode, id_tag, MB_SUCCESS, MBI, MESHSET_SET, name_tag, and moab::Interface::tag_set_data().

Referenced by setup_group_data().

factory()

ReaderIface * ReadRTT::factory ( Interface *  iface )

static

Definition at line 50 of file ReadRTT.cpp.

{
 return new ReadRTT( iface );
}

References iface, and ReadRTT().

Referenced by moab::ReaderWriterSet::ReaderWriterSet().

generate_parent_child_links()

void ReadRTT::generate_parent_child_links ( int  num_ents[4], std::vector< EntityHandle >  entity_map[4], std::vector< side >  side_data, std::vector< cell >  cell_data  )

private

Generate parent child links to create DAGMC like structure of surface meshsets being children of parent cell meshsets. By looping over the surfaces (1->N), look in the description of the cells that are shared by that surface, and then make the surface the child of the parent volume. The appropriate sense data will be set later

Parameters

num_ents[4],array	containing the number of surfaces, cells, groups etc
entity_map[4],vector	of maps containing data by dimension
side_data,vector	of all the side data in the problem
cell_data,vector	of the cell data in the problem

Definition at line 813 of file ReadRTT.cpp.

{
 ErrorCode rval; // return value
 // loop over the number of surfaces
 for( int i = 0; i < num_ents[2]; i++ )
 {
 // get the surface handle
 EntityHandle surf_handle = entity_map[2][i];
 // there are volumes that share this face
 for( unsigned int shared = 0; shared <= 1; shared++ )
 {
 std::string parent_name = side_data[i].names[shared];
 // find the @ sign
 unsigned pos = parent_name.find( "@" );
 parent_name = parent_name.substr( 0, pos );
 
 // loop over tets looking for matching name
 for( int j = 0; j < num_ents[3]; j++ )
 {
 // if match found
 if( cell_data[j].name.compare( parent_name ) == 0 )
 {
 EntityHandle cell_handle = entity_map[3][j];
 // parent
 rval = MBI->add_parent_child( cell_handle, surf_handle );
 if( rval != MB_SUCCESS )
 {
 std::cerr << "Failed to add parent child relationship" << std::endl;
 }
 }
 }
 }
 }
 return;
}

References moab::Interface::add_parent_child(), ErrorCode, MB_SUCCESS, and MBI.

Referenced by generate_topology().

generate_topology()

ErrorCode ReadRTT::generate_topology ( std::vector< side >  side_data, std::vector< cell >  cell_data, std::map< int, EntityHandle > &  surface_map  )

private

generates the topology of the problem from the already read input data, loops over the 2 and 3 dimension macrodata that exist from the rtt file, sides = dagmc surfaces, cells = dagmc cells, creates a meshset for each surface and tags with the id number, and similarly makes a meshset for dagmc cells and tags with the id number. The surfaces are added to the s surface map, where the key is the surface ID number (1->N) and (cells and surfaces are added to an dimesional entity map stored in the class

Parameters

side_data,vector	of side data
cell_data,vector	of vector of cell data
surface_map,reference	to the surface map of data

Definition at line 166 of file ReadRTT.cpp.

{
 
 ErrorCode rval;
 std::vector< EntityHandle > entmap[4];
 int num_ents[4]; // number of entities in each dimension
 
 const char geom_categories[][CATEGORY_TAG_SIZE] = { "Vertex\0", "Curve\0", "Surface\0", "Volume\0", "Group\0" };
 
 std::vector< int > surface_numbers; // the surface numbers in the problem
 
 // corresponds to number of cad like surfaces and cad like volumes
 num_ents[2] = side_data.size();
 num_ents[3] = cell_data.size();
 
 // loop over surfaces & volumes
 for( int dim = 2; dim <= 3; dim++ )
 {
 for( int i = 0; i != num_ents[dim]; i++ )
 {
 EntityHandle handle;
 // create a meshset for each entity surface/volume
 rval = MBI->create_meshset( dim == 1 ? MESHSET_ORDERED : MESHSET_SET, handle );
 // if failure
 if( rval != MB_SUCCESS ) return rval;
 
 // collect the entity handles into an
 entmap[dim].push_back( handle );
 
 // set the dimension tag
 rval = MBI->tag_set_data( geom_tag, &handle, 1, &dim );
 // if fail
 if( MB_SUCCESS != rval ) return rval;
 // if we are a surface
 if( dim == 2 )
 {
 // tag the id onto the surface meshset
 rval = MBI->tag_set_data( id_tag, &handle, 1, &side_data[i].id );
 // inesert entity into the map
 surface_map[side_data[i].id] = handle;
 }
 else
 {
 // otherwise we set the volume tag data, loop is only 2 & 3 dim
 rval = MBI->tag_set_data( id_tag, &handle, 1, &cell_data[i].id );
 }
 // if fail
 if( MB_SUCCESS != rval ) return rval;
 // set the category tag
 rval = MBI->tag_set_data( category_tag, &handle, 1, &geom_categories[dim] );
 if( MB_SUCCESS != rval ) return rval;
 }
 }
 
 // generate parent child links
 // best to loop over the surfaces and assign them to volumes, we can then assign facets to
 // to each surface
 generate_parent_child_links( num_ents, entmap, side_data, cell_data );
 
 // set the surface senses
 set_surface_senses( num_ents, entmap, side_data, cell_data );
 
 // set the group data
 rval = setup_group_data( entmap );
 
 return MB_SUCCESS;
}

References category_tag, CATEGORY_TAG_SIZE, moab::Interface::create_meshset(), dim, ErrorCode, generate_parent_child_links(), geom_tag, id_tag, MB_SUCCESS, MBI, MESHSET_SET, set_surface_senses(), setup_group_data(), and moab::Interface::tag_set_data().

Referenced by load_file().

get_cell_data()

ReadRTT::cell ReadRTT::get_cell_data ( std::string  celldata )

private

Reads a single atomic cell data string and populates a cell struct

Parameters

celldata,a

string of read data and

Returns

cell, the propulated cell struct

Definition at line 633 of file ReadRTT.cpp.

{
 cell new_cell;
 std::vector< std::string > tokens;
 tokens = ReadRTT::split_string( celldata, ' ' );
 
 // set the side id
 if( tokens.size() != 2 )
 {
 MB_SET_ERR_RET_VAL( "Error, too many tokens found from cell_data", new_cell );
 }
 // create the new side
 new_cell.id = std::atoi( tokens[0].c_str() );
 new_cell.name = tokens[1];
 
 return new_cell;
}

References moab::ReadRTT::cell::id, MB_SET_ERR_RET_VAL, moab::ReadRTT::cell::name, and split_string().

Referenced by read_cells().

get_facet_data()

ReadRTT::facet ReadRTT::get_facet_data ( std::string  facetdata )

private

Reads a single atomic facet data string and populates a facet struct

Parameters

facetdata,a

string of facet data and

Returns

facet, the propulated facet struct

Definition at line 675 of file ReadRTT.cpp.

{
 facet new_facet;
 std::vector< std::string > tokens;
 tokens = ReadRTT::split_string( facetdata, ' ' );
 
 // set the side id
 if( tokens.size() != 7 )
 {
 MB_SET_ERR_RET_VAL( "Error, too many tokens found from get_facet_data", new_facet );
 }
 
 new_facet.id = std::atoi( tokens[0].c_str() );
 // branch on the rtt version number
 if( header_data.version == "v1.0.0" )
 {
 new_facet.connectivity[0] = std::atoi( tokens[1].c_str() );
 new_facet.connectivity[1] = std::atoi( tokens[2].c_str() );
 new_facet.connectivity[2] = std::atoi( tokens[3].c_str() );
 new_facet.side_id = std::atoi( tokens[4].c_str() );
 new_facet.surface_number = std::atoi( tokens[5].c_str() );
 }
 else if( header_data.version == "v1.0.1" )
 {
 new_facet.connectivity[0] = std::atoi( tokens[2].c_str() );
 new_facet.connectivity[1] = std::atoi( tokens[3].c_str() );
 new_facet.connectivity[2] = std::atoi( tokens[4].c_str() );
 new_facet.side_id = std::atoi( tokens[5].c_str() );
 new_facet.surface_number = std::atoi( tokens[6].c_str() );
 }
 else
 {
 MB_SET_ERR_RET_VAL( "Error, version number not understood", new_facet );
 }
 
 return new_facet;
}

References moab::ReadRTT::facet::connectivity, header_data, moab::ReadRTT::facet::id, MB_SET_ERR_RET_VAL, moab::ReadRTT::facet::side_id, split_string(), moab::ReadRTT::facet::surface_number, and moab::ReadRTT::headerData::version.

Referenced by read_facets().

get_header_data()

ErrorCode ReadRTT::get_header_data ( std::ifstream &  input_file )

private

Reads the header data into a class member structure

Parameters

input_file,an

open filestream

Returns

void

Definition at line 547 of file ReadRTT.cpp.

{
 std::string line;
 while( std::getline( input_file, line ) )
 {
 
 // tokenize the line
 std::istringstream iss( line );
 std::vector< std::string > split_string;
 do
 {
 std::string sub_string;
 iss >> sub_string;
 split_string.push_back( sub_string );
 } while( iss );
 
 // if we find version
 if( line.find( "version" ) != std::string::npos )
 {
 if( split_string[1].find( "v" ) != std::string::npos &&
 split_string[0].find( "version" ) != std::string::npos )
 {
 header_data.version = split_string[1];
 }
 }
 
 if( line.find( "title" ) != std::string::npos )
 {
 header_data.title = split_string[1];
 }
 if( line.find( "date" ) != std::string::npos )
 {
 header_data.date = split_string[1];
 }
 if( line.find( "end_header" ) != std::string::npos )
 {
 return MB_SUCCESS;
 }
 }
 
 // otherwise we never found the end_header keyword
 return MB_FAILURE;
}

References moab::ReadRTT::headerData::date, header_data, input_file, MB_SUCCESS, split_string(), moab::ReadRTT::headerData::title, and moab::ReadRTT::headerData::version.

Referenced by read_header().

get_node_data()

ReadRTT::node ReadRTT::get_node_data ( std::string  nodedata )

private

Reads a single atomic node data string and populates a node struct

Parameters

sidedata,a

string of read data and

Returns

node, the propulated node struct

Definition at line 654 of file ReadRTT.cpp.

{
 node new_node;
 std::vector< std::string > tokens;
 tokens = ReadRTT::split_string( nodedata, ' ' );
 
 // set the side id
 if( tokens.size() != 5 )
 {
 MB_SET_ERR_RET_VAL( "Error, too many tokens found from get_node_data", new_node );
 }
 new_node.id = std::atoi( tokens[0].c_str() );
 new_node.x = std::atof( tokens[1].c_str() );
 new_node.y = std::atof( tokens[2].c_str() );
 new_node.z = std::atof( tokens[3].c_str() );
 return new_node;
}

References moab::ReadRTT::node::id, MB_SET_ERR_RET_VAL, split_string(), moab::ReadRTT::node::x, moab::ReadRTT::node::y, and moab::ReadRTT::node::z.

Referenced by read_nodes().

get_side_data()

ReadRTT::side ReadRTT::get_side_data ( std::string  sidedata )

private

Reads a single atomic side data string and populates a side struct

Parameters

sidedata,a

string of read data and

Returns

side, the propulated side struct

Definition at line 594 of file ReadRTT.cpp.

{
 side new_side;
 std::vector< std::string > tokens;
 tokens = ReadRTT::split_string( sidedata, ' ' );
 
 // set the side id
 if( tokens.size() != 2 )
 {
 MB_SET_ERR_RET_VAL( "Error, too many tokens found from side_data", new_side );
 }
 // create the new side
 new_side.id = std::atoi( tokens[0].c_str() );
 
 std::vector< std::string > cell_names = ReadRTT::split_string( tokens[1], '/' );
 // get the boundary
 boundary new_bnd = ReadRTT::split_name( cell_names[0] );
 // set the surface sense and name
 new_side.senses[0] = new_bnd.sense;
 new_side.names[0] = new_bnd.name;
 //
 if( cell_names.size() > 1 )
 {
 boundary bnd = ReadRTT::split_name( cell_names[1] );
 new_side.senses[1] = bnd.sense;
 new_side.names[1] = bnd.name;
 }
 else
 {
 new_side.senses[1] = 0;
 new_side.names[1] = "\0";
 }
 
 return new_side;
}

References moab::ReadRTT::side::id, MB_SET_ERR_RET_VAL, moab::ReadRTT::boundary::name, moab::ReadRTT::side::names, moab::ReadRTT::boundary::sense, moab::ReadRTT::side::senses, split_name(), and split_string().

Referenced by read_sides().

get_tet_data()

ReadRTT::tet ReadRTT::get_tet_data ( std::string  tetdata )

private

Reads a single atomic tet data string and populates a tet struct

Parameters

tetdata,a

string of tet data and

Returns

tet, the propulated tet struct

Definition at line 716 of file ReadRTT.cpp.

{
 tet new_tet;
 std::vector< std::string > tokens;
 tokens = ReadRTT::split_string( tetdata, ' ' );
 
 // set the side id
 if( tokens.size() != 7 )
 {
 MB_SET_ERR_RET_VAL( "Error, too many tokens found from get_tet_data", new_tet );
 }
 new_tet.id = std::atoi( tokens[0].c_str() );
 // branch on the version number
 if( header_data.version == "v1.0.0" )
 {
 new_tet.connectivity[0] = std::atoi( tokens[1].c_str() );
 new_tet.connectivity[1] = std::atoi( tokens[2].c_str() );
 new_tet.connectivity[2] = std::atoi( tokens[3].c_str() );
 new_tet.connectivity[3] = std::atoi( tokens[4].c_str() );
 new_tet.material_number = std::atoi( tokens[5].c_str() );
 }
 else if( header_data.version == "v1.0.1" )
 {
 new_tet.connectivity[0] = std::atoi( tokens[2].c_str() );
 new_tet.connectivity[1] = std::atoi( tokens[3].c_str() );
 new_tet.connectivity[2] = std::atoi( tokens[4].c_str() );
 new_tet.connectivity[3] = std::atoi( tokens[5].c_str() );
 new_tet.material_number = std::atoi( tokens[6].c_str() );
 }
 else
 {
 MB_SET_ERR_RET_VAL( "Error, version number not supported", new_tet );
 }
 
 return new_tet;
}

References moab::ReadRTT::tet::connectivity, header_data, moab::ReadRTT::tet::id, moab::ReadRTT::tet::material_number, MB_SET_ERR_RET_VAL, split_string(), and moab::ReadRTT::headerData::version.

Referenced by read_tets().

load_file()

ErrorCode ReadRTT::load_file ( const char *  file_name, const EntityHandle *  file_set, const FileOptions &  opts, const SubsetList *  subset_list = 0, const Tag *  file_id_tag = 0  )

virtual

Load mesh from a file.

Method all readers must provide to import a mesh.

Parameters

file_name	The file to read.
file_set	Optional pointer to entity set representing file. If this is not NULL, reader may optionally tag the pointed-to set with format-specific meta-data.
subset_list	An optional struct pointer specifying the tags identifying entity sets to be read.
file_id_tag	If specified, reader should store for each entity it reads, a unique integer ID for this tag.

Author

Jason Kraftcheck

Implements moab::ReaderIface.

Definition at line 100 of file ReadRTT.cpp.

{
 ErrorCode rval;
 
 // at this time there is no support for reading a subset of the file
 if( subset_list )
 {
 std::cout << "Subset reading not supported for RTT meshes" << std::endl;
 return MB_UNSUPPORTED_OPERATION;
 }
 
 // test to see if file exists
 FILE* file = NULL;
 file = fopen( filename, "r" );
 if( file == NULL ) return MB_FILE_DOES_NOT_EXIST;
 // otherwise close the file
 fclose( file );
 
 // read the header
 rval = ReadRTT::read_header( filename );
 if( rval != MB_SUCCESS ) return rval;
 
 // read the side_flag data
 std::vector< side > side_data;
 rval = ReadRTT::read_sides( filename, side_data );
 if( rval != MB_SUCCESS ) return rval;
 
 // read the cell data
 std::vector< cell > cell_data;
 rval = ReadRTT::read_cells( filename, cell_data );
 if( rval != MB_SUCCESS ) return rval;
 
 // read the node data
 std::vector< node > node_data;
 rval = ReadRTT::read_nodes( filename, node_data );
 if( rval != MB_SUCCESS ) return rval;
 
 // read the facet data
 std::vector< facet > facet_data;
 rval = ReadRTT::read_facets( filename, facet_data );
 if( rval != MB_SUCCESS ) return rval;
 
 // read the tetrahedra data
 std::vector< tet > tet_data;
 rval = ReadRTT::read_tets( filename, tet_data );
 if( rval != MB_SUCCESS ) return rval;
 
 // make the map of surface number in the rttmesh to the surface meshset
 std::map< int, EntityHandle > surface_map; // corrsespondance of surface number to entity handle
 rval = ReadRTT::generate_topology( side_data, cell_data, surface_map );
 if( rval != MB_SUCCESS ) return rval;
 
 // generate the rest of the database, triangles to surface meshsets etc
 rval = ReadRTT::build_moab( node_data, facet_data, tet_data, surface_map );
 if( rval != MB_SUCCESS ) return rval;
 
 return MB_SUCCESS;
}

References build_moab(), ErrorCode, generate_topology(), MB_FILE_DOES_NOT_EXIST, MB_SUCCESS, MB_UNSUPPORTED_OPERATION, read_cells(), read_facets(), read_header(), read_nodes(), read_sides(), and read_tets().

read_cells()

ErrorCode ReadRTT::read_cells ( const char *  filename, std::vector< cell > &  cell_data  )

private

Reads the full set of cell data from the file

Parameters

filename,the	file to read all the side data from
cell	data, a vector containing all the read cell data

Returns

moab::ErrorCode

Definition at line 405 of file ReadRTT.cpp.

{
 std::string line; // the current line being read
 std::ifstream input_file( filename ); // filestream for rttfile
 // file ok?
 if( !input_file.good() )
 {
 std::cout << "Problems reading file = " << filename << std::endl;
 return MB_FAILURE;
 }
 // if it works
 if( input_file.is_open() )
 {
 while( std::getline( input_file, line ) )
 {
 if( line.compare( " 1 REGIONS\0" ) == 0 )
 {
 // read lines until find end nodes
 while( std::getline( input_file, line ) )
 {
 if( line.compare( "end_cell_flags\0" ) == 0 ) break;
 cell data = ReadRTT::get_cell_data( line );
 cell_data.push_back( data );
 }
 }
 }
 input_file.close();
 }
 if( cell_data.size() == 0 ) return MB_FAILURE;
 return MB_SUCCESS;
}

References get_cell_data(), input_file, and MB_SUCCESS.

Referenced by load_file().

read_facets()

ErrorCode ReadRTT::read_facets ( const char *  filename, std::vector< facet > &  facet_data  )

private

Reads the full set of facet data from the file

Parameters

filename,the	file to read all the side data from
facet	data, a vector containing all the read facet data

Returns

moab::ErrorCode

Definition at line 476 of file ReadRTT.cpp.

{
 std::string line; // the current line being read
 std::ifstream input_file( filename ); // filestream for rttfile
 // file ok?
 if( !input_file.good() )
 {
 std::cout << "Problems reading file = " << filename << std::endl;
 return MB_FAILURE;
 }
 
 // if it works
 if( input_file.is_open() )
 {
 while( std::getline( input_file, line ) )
 {
 if( line.compare( "sides\0" ) == 0 )
 {
 // read lines until find end nodes
 while( std::getline( input_file, line ) )
 {
 if( line.compare( "end_sides\0" ) == 0 ) break;
 facet data = ReadRTT::get_facet_data( line );
 facet_data.push_back( data );
 }
 }
 }
 input_file.close();
 }
 if( facet_data.size() == 0 ) return MB_FAILURE;
 return MB_SUCCESS;
}

References get_facet_data(), input_file, and MB_SUCCESS.

Referenced by load_file().

read_header()

ErrorCode ReadRTT::read_header ( const char *  filename )

private

reads the full set of header data

Parameters

filename,the

file to read the data from

Returns

moab::Error code

Definition at line 340 of file ReadRTT.cpp.

{
 std::ifstream input_file( filename ); // filename for rtt file
 // file ok?
 if( !input_file.good() )
 {
 std::cout << "Problems reading file = " << filename << std::endl;
 return MB_FAILURE;
 }
 
 // if it works
 std::string line;
 moab::ErrorCode rval = MB_FAILURE;
 if( input_file.is_open() )
 {
 while( std::getline( input_file, line ) )
 {
 if( line.compare( "header" ) == 0 )
 {
 rval = get_header_data( input_file );
 }
 }
 input_file.close();
 }
 return rval;
}

References ErrorCode, get_header_data(), and input_file.

Referenced by load_file().

read_nodes()

ErrorCode ReadRTT::read_nodes ( const char *  filename, std::vector< node > &  node_data  )

private

Reads the full set of node data from the file

Parameters

filename,the	file to read all the side data from
node	data, a vector containing all the read node data

Returns

moab::ErrorCode

Definition at line 440 of file ReadRTT.cpp.

{
 std::string line; // the current line being read
 std::ifstream input_file( filename ); // filestream for rttfile
 // file ok?
 if( !input_file.good() )
 {
 std::cout << "Problems reading file = " << filename << std::endl;
 return MB_FAILURE;
 }
 
 // if it works
 if( input_file.is_open() )
 {
 while( std::getline( input_file, line ) )
 {
 if( line.compare( "nodes\0" ) == 0 )
 {
 // read lines until find end nodes
 while( std::getline( input_file, line ) )
 {
 if( line.compare( "end_nodes\0" ) == 0 ) break;
 node data = ReadRTT::get_node_data( line );
 node_data.push_back( data );
 }
 }
 }
 input_file.close();
 }
 if( node_data.size() == 0 ) return MB_FAILURE;
 return MB_SUCCESS;
}

References get_node_data(), input_file, and MB_SUCCESS.

Referenced by load_file().

read_sides()

ErrorCode ReadRTT::read_sides ( const char *  filename, std::vector< side > &  side_data  )

private

Reads the full set of side data from the file

Parameters

filename,the	file to read all the side data from
side	data, a vector containing all the read side data

Returns

moab::ErrorCode

Definition at line 370 of file ReadRTT.cpp.

{
 std::string line; // the current line being read
 std::ifstream input_file( filename ); // filestream for rttfile
 // file ok?
 if( !input_file.good() )
 {
 std::cout << "Problems reading file = " << filename << std::endl;
 return MB_FAILURE;
 }
 // if it works
 if( input_file.is_open() )
 {
 while( std::getline( input_file, line ) )
 {
 if( line.compare( " 2 FACES\0" ) == 0 )
 {
 // read lines until find end nodes
 while( std::getline( input_file, line ) )
 {
 if( line.compare( "end_side_flags\0" ) == 0 ) break;
 side data = ReadRTT::get_side_data( line );
 side_data.push_back( data );
 }
 }
 }
 input_file.close();
 }
 if( side_data.size() == 0 ) return MB_FAILURE;
 return MB_SUCCESS;
}

References get_side_data(), input_file, and MB_SUCCESS.

Referenced by load_file().

read_tag_values()

ErrorCode ReadRTT::read_tag_values ( const char *  file_name, const char *  tag_name, const FileOptions &  opts, std::vector< int > &  tag_values_out, const SubsetList *  subset_list = 0  )

virtual

Read tag values from a file.

Read the list if all integer tag values from the file for a tag that is a single integer value per entity.

Parameters

file_name	The file to read.
tag_name	The tag for which to read values
tag_values_out	Output: The list of tag values.
subset_list	An array of tag name and value sets specifying the subset of the file to read. If multiple tags are specified, the sets that match all tags (intersection) should be read.
subset_list_length	The length of the 'subset_list' array.

Implements moab::ReaderIface.

Definition at line 90 of file ReadRTT.cpp.

{
 return MB_NOT_IMPLEMENTED;
}

References MB_NOT_IMPLEMENTED.

read_tets()

ErrorCode ReadRTT::read_tets ( const char *  filename, std::vector< tet > &  tet_data  )

private

Reads the full set of tet data from the file

Parameters

filename,the	file to read all the side data from
tet	data, a vector containing all the read tet data

Returns

moab::ErrorCode

Definition at line 512 of file ReadRTT.cpp.

{
 std::string line; // the current line being read
 std::ifstream input_file( filename ); // filestream for rttfile
 // file ok?
 if( !input_file.good() )
 {
 std::cout << "Problems reading file = " << filename << std::endl;
 return MB_FAILURE;
 }
 // if it works
 if( input_file.is_open() )
 {
 while( std::getline( input_file, line ) )
 {
 if( line.compare( "cells\0" ) == 0 )
 {
 // read lines until find end nodes
 while( std::getline( input_file, line ) )
 {
 if( line.compare( "end_cells\0" ) == 0 ) break;
 tet data = ReadRTT::get_tet_data( line );
 tet_data.push_back( data );
 }
 }
 }
 input_file.close();
 }
 if( tet_data.size() == 0 ) return MB_FAILURE;
 return MB_SUCCESS;
}

References get_tet_data(), input_file, and MB_SUCCESS.

Referenced by load_file().

set_surface_senses()

void ReadRTT::set_surface_senses ( int  num_ents[4], std::vector< EntityHandle >  entity_map[4], std::vector< side >  side_data, std::vector< cell >  cell_data  )

private

Sets the appropriate surface senses for each surface in the problem. By looping through all the surfaces, we determine from the side_data vector, the volume id's that are shared, then using 1 to mean +ve sense and -1 to mean -ve sense wrt the volume.

Parameters

num_ents[4],array	containing the number of surfaces, cells, groups etc
entity_map[4],vector	of maps containing data by dimension
side_data,vector	of all the side data in the problem
cell_data,vector	of the cell data in the problem

Definition at line 855 of file ReadRTT.cpp.

{
 
 ErrorCode rval; // return value
 // loop over the number of surfaces
 for( int i = 0; i < num_ents[2]; i++ )
 {
 EntityHandle surf_handle = entity_map[2][i];
 // there are 2 volumes that share this face
 for( unsigned int shared = 0; shared <= 1; shared++ )
 {
 std::string parent_name = side_data[i].names[shared];
 unsigned pos = parent_name.find( "@" );
 parent_name = parent_name.substr( 0, pos );
 // loop over tets looking for matching name
 for( int j = 0; j < num_ents[3]; j++ )
 {
 // if match found
 if( cell_data[j].name.compare( parent_name ) == 0 )
 {
 EntityHandle cell_handle = entity_map[3][j];
 // in rtt mesh +represents the inside and -represents outside
 // in moab reverse is outside and forward is inside
 if( side_data[i].senses[shared] == 1 )
 rval = myGeomTool->set_sense( surf_handle, cell_handle, SENSE_FORWARD );
 else if( side_data[i].senses[shared] == -1 )
 rval = myGeomTool->set_sense( surf_handle, cell_handle, SENSE_REVERSE );
 else
 rval = myGeomTool->set_sense( surf_handle, 0, SENSE_REVERSE );
 
 if( rval != MB_SUCCESS )
 {
 std::cerr << "Failed to set sense appropriately" << std::endl;
 }
 }
 }
 }
 }
 return;
}

References ErrorCode, MB_SUCCESS, myGeomTool, SENSE_REVERSE, and moab::GeomTopoTool::set_sense().

Referenced by generate_topology().

setup_group_data()

ErrorCode ReadRTT::setup_group_data ( std::vector< EntityHandle >  entity_map[4] )

private

creates the group data requried for dagmc, reflecting planes, material assignments etc

Parameters

entity_map,vector

of vector of entitiy handles for each dimension

Returns

moab::ErrorCode

Definition at line 902 of file ReadRTT.cpp.

{
 ErrorCode rval; // error codes
 EntityHandle handle;
 handle = create_group( "graveyard_comp", 1 );
 
 // add any volume to group graveyard, it is ignored by dag
 EntityHandle vol_handle = entity_map[3][0];
 rval = MBI->add_entities( handle, &vol_handle, 1 );
 return rval;
}

References moab::Interface::add_entities(), create_group(), ErrorCode, and MBI.

Referenced by generate_topology().

split_name()

ReadRTT::boundary ReadRTT::split_name ( std::string  atilla_cellname )

private

Splits an Attila cellname and populates a boundary structure

Parameters

attila_cellname,string

containing the boundary information

Returns

a boundary object

Definition at line 757 of file ReadRTT.cpp.

{
 boundary new_boundary;
 // default initialisation
 new_boundary.sense = 0;
 new_boundary.name = "\0";
 // +ve sense
 if( atilla_cellname.find( "+" ) != std::string::npos )
 {
 new_boundary.sense = 1;
 // look for the @# we do not want it
 std::size_t found = atilla_cellname.find( "@" );
 if( found != std::string::npos )
 new_boundary.name = atilla_cellname.substr( 3, found );
 else
 new_boundary.name = atilla_cellname.substr( 3, atilla_cellname.length() );
 }
 else if( atilla_cellname.find( "-" ) != std::string::npos )
 {
 // negative sense
 new_boundary.sense = -1;
 new_boundary.name = atilla_cellname.substr( 3, atilla_cellname.length() );
 }
 return new_boundary;
}

References moab::ReadRTT::boundary::name, and moab::ReadRTT::boundary::sense.

Referenced by get_side_data().

split_string()

std::vector< std::string > ReadRTT::split_string ( std::string  string_to_split, char  split_char  )

private

Splits a string into a vector of substrings delimited by split_char

Parameters

string_to_split,the	string that needs splitting into chunks
split_char,the	character to split the string with

Returns

a vector of strings that are delimited by split_char

Definition at line 786 of file ReadRTT.cpp.

{
 std::istringstream ss( string_to_split );
 std::vector< std::string > tokens;
 while( !ss.eof() )
 {
 std::string x; // here's a nice, empty string
 std::getline( ss, x, split_char ); // try to read the next field into it
 tokens.push_back( x );
 }
 
 // remove empty tokens
 std::vector< std::string >::iterator it;
 for( it = tokens.begin(); it != tokens.end(); )
 {
 std::string string = *it;
 if( string.compare( "\0" ) == 0 )
 it = tokens.erase( it );
 else
 ++it;
 }
 return tokens;
}

Referenced by get_cell_data(), get_facet_data(), get_header_data(), get_node_data(), get_side_data(), and get_tet_data().

Member Data Documentation

category_tag

Tag moab::ReadRTT::category_tag

private

Definition at line 448 of file ReadRTT.hpp.

Referenced by create_group(), generate_topology(), and ReadRTT().

faceting_tol_tag

Tag moab::ReadRTT::faceting_tol_tag

private

Definition at line 448 of file ReadRTT.hpp.

Referenced by ReadRTT().

geom_tag

Tag moab::ReadRTT::geom_tag

private

Definition at line 448 of file ReadRTT.hpp.

Referenced by generate_topology(), and ReadRTT().

header_data

headerData moab::ReadRTT::header_data

private

Definition at line 440 of file ReadRTT.hpp.

Referenced by get_facet_data(), get_header_data(), and get_tet_data().

id_tag

Tag moab::ReadRTT::id_tag

private

Definition at line 448 of file ReadRTT.hpp.

Referenced by create_group(), generate_topology(), and ReadRTT().

MBI

Interface* moab::ReadRTT::MBI

private

Definition at line 444 of file ReadRTT.hpp.

Referenced by build_moab(), create_group(), generate_parent_child_links(), generate_topology(), ReadRTT(), setup_group_data(), and ~ReadRTT().

myGeomTool

GeomTopoTool* moab::ReadRTT::myGeomTool

private

Definition at line 446 of file ReadRTT.hpp.

Referenced by ReadRTT(), set_surface_senses(), and ~ReadRTT().

name_tag

Tag moab::ReadRTT::name_tag

private

Definition at line 448 of file ReadRTT.hpp.

Referenced by create_group(), and ReadRTT().

readMeshIface

ReadUtilIface* moab::ReadRTT::readMeshIface

private

Definition at line 442 of file ReadRTT.hpp.

Referenced by ReadRTT(), and ~ReadRTT().

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

• ReadRTT.hpp
• ReadRTT.cpp