UserObject class which wraps a moab::Interface pointer. More...

#include <MoabUserObject.h>

Inheritance diagram for MoabUserObject:

Classes
struct	VolData
	Encode MOAB information about volumes needed when creating surfaces. More...

Public Member Functions
	MoabUserObject (const InputParameters &parameters)

virtual void	execute ()
	Override MOOSE virtual method to do nothing. More...

virtual void	initialize ()
	Override MOOSE virtual method to do nothing. More...

virtual void	finalize ()
	Override MOOSE virtual method to do nothing. More...

virtual void	threadJoin (const UserObject &)
	Override MOOSE virtual method to do nothing. More...

void	setProblem (FEProblemBase *problem)
	Pass in the FE Problem. More...

bool	hasProblem ()
	Check if problem has been set. More...

FEProblemBase &	problem ()
	Get a reference to the FE problem. More...

void	initMOAB ()
	Initialise MOAB. More...

void	initBinningData ()
	Intialise objects needed to perform binning of elements. More...

void	reset ()
	Clear mesh data. More...

bool	update ()
	Update MOAB with any results from MOOSE. More...

bool	setSolution (std::string var_now, std::vector< double > &results, double scaleFactor=1., bool isErr=false, bool normToVol=true)
	Pass the OpenMC results into the libMesh systems solution. More...

void	getMaterialProperties (std::vector< std::string > &mat_names_out, std::vector< double > &initial_densities, std::vector< std::string > &tails, std::vector< MOABMaterialProperties > &properties)
	Retrieve a list of original material names and properties. More...

Public Attributes
std::shared_ptr< moab::Interface >	moabPtr
	Publically available pointer to MOAB interface. More...

Private Types
enum	Sense { BACKWARDS =-1, FORWARDS =1 }
	Encode the whether the surface normal faces into or out of the volume. More...

Private Member Functions
MeshBase &	mesh ()
	Get a modifyable reference to the underlying libmesh mesh. More...

EquationSystems &	systems ()
	Get a modifyable reference to the underlying libmesh equation systems. More...

System &	system (std::string var_now)
	Get a modifyable reference to the underlying libmesh system. More...

moab::ErrorCode	createNodes (std::map< dof_id_type, moab::EntityHandle > &node_id_to_handle)
	Helper method to create MOAB nodes. More...

void	createElems (std::map< dof_id_type, moab::EntityHandle > &node_id_to_handle)
	Helper method to create MOAB elements. More...

moab::ErrorCode	createTags ()
	Helper method to create MOAB tags. More...

moab::ErrorCode	createGroup (unsigned int id, std::string name, moab::EntityHandle &group_set)
	Helper method to create MOAB group entity set. More...

moab::ErrorCode	createVol (unsigned int id, moab::EntityHandle &volume_set, moab::EntityHandle group_set)
	Helper method to create MOAB volume entity set. More...

moab::ErrorCode	createSurf (unsigned int id, moab::EntityHandle &surface_set, moab::Range &faces, std::vector< VolData > &voldata)
	Helper method to create MOAB surface entity set. More...

moab::ErrorCode	createSurfaces (moab::Range &reversed, VolData &voldata, unsigned int &surf_id)
	Helper method to create MOAB surfaces with no overlaps. More...

moab::ErrorCode	createSurfaceFromBox (const BoundingBox &box, VolData &voldata, unsigned int &surf_id, bool normalout, double factor=1.0)
	Create a MOAB surface from a bounding box. More...

moab::ErrorCode	createNodesFromBox (const BoundingBox &box, double factor, std::vector< moab::EntityHandle > &vert_handles)
	Create MOAB nodes from a bounding box. More...

moab::ErrorCode	createCornerTris (const std::vector< moab::EntityHandle > &verts, unsigned int corner, unsigned int v1, unsigned int v2, unsigned int v3, bool normalout, moab::Range &surface_tris)
	Create 3 tri faces stemming from one corner of a cude (an open tetrahedron) More...

moab::ErrorCode	createTri (const std::vector< moab::EntityHandle > &vertices, unsigned int v1, unsigned int v2, unsigned int v3, moab::Range &surface_tris)
	Create MOAB tri surface element. More...

moab::ErrorCode	updateSurfData (moab::EntityHandle surface_set, VolData data)
	Add parent-child metadata relating a surface to its volume. More...

moab::ErrorCode	setTags (moab::EntityHandle ent, std::string name, std::string category, unsigned int id, int dim)
	Generic method to set the tags that DAGMC requires. More...

moab::ErrorCode	setTagData (moab::Tag tag, moab::EntityHandle ent, std::string data, unsigned int SIZE)
	Helper function to wrap moab::tag_set_data for a string. More...

moab::ErrorCode	setTagData (moab::Tag tag, moab::EntityHandle ent, void *data)
	Helper function to wrap moab::tag_set_data for a generic pointer. More...

bool	getTetSets (ElemType type, std::vector< std::vector< unsigned int > > &perms)
	Return all sets of node indices for sub-tetrahedra if we have a second order mesh. More...

moab::ErrorCode	buildGraveyard (unsigned int &vol_id, unsigned int &surf_id)
	Build the graveyard (needed by OpenMC) More...

std::vector< Point >	boxCoords (const BoundingBox &box, double factor)
	Get the coords of the box back as an array (possibly scaled) More...

void	findMaterials ()
	Look for materials in the FE problem. More...

void	clearElemMaps ()
	Clear the maps between entity handles and dof ids. More...

void	addElem (dof_id_type id, moab::EntityHandle ent)
	Add an element to maps. More...

void	setSolution (unsigned int iSysNow, unsigned int iVarNow, std::vector< double > &results, double scaleFactor, bool isErr, bool normToVol)
	Helper method to set the results in a given system and variable. More...

dof_id_type	elem_to_soln_index (const Elem &elem, unsigned int iSysNow, unsigned int iVarNow)
	Helper method to convert between elem / solution indices. More...

NumericVector< Number > &	getSerialisedSolution (libMesh::System *sysPtr)
	Get a serialised version of solution for a given system. More...

void	setMeshFunction (std::string var_name_in)
	Create and save a mesh function for the provided variable. More...

double	evalMeshFunction (std::shared_ptr< MeshFunction > meshFunctionPtr, const Point &p)
	Evaluate a mesh function at a point. More...

std::shared_ptr< MeshFunction >	getMeshFunction (std::string var_name_in)
	Fetch the mesh function associated with a variable. More...

bool	sortElemsByResults ()
	Sort elems in to bins of a given temperature. More...

bool	findSurfaces ()
	Group the binned elems into local temperature regions and find their surfaces. More...

void	groupLocalElems (std::set< dof_id_type > elems, std::vector< moab::Range > &localElems)

int	getResultsBin (double value)
	Given a value of our variable, find what bin this corresponds to. More...

int	getResultsBinLin (double value)
	Find results bin if we have linear binning. More...

int	getResultsBinLog (double value)
	Find results bin if we have logarithmic. More...

int	getRelDensityBin (double value)
	Return the bin index of a given relative density. More...

int	getSortBin (int iVarBin, int iDenBin, int iMat, int nVarBinsIn, int nDenBinsIn, int nMatsIn)
	Map material, density and temp bin indices onto a linearised index. More...

int	getSortBin (int iVarBin, int iDenBin, int iMat)

int	getMatBin (int iVarBin, int iDenBin, int nVarBinsIn, int nDenBinsIn)
	Map density and temp bin indices onto a linearised index. More...

int	getMatBin (int iVarBin, int iDenBin)

void	calcMidpoints ()
	Calculate the variable evaluated at the bin midpoints. More...

void	calcMidpointsLin ()
	Calculate the variable evaluated at the bin midpoints for linear binning. More...

void	calcMidpointsLog ()
	Calculate the variable evaluated at the bin midpoints for log binning. More...

void	calcDenMidpoints ()
	Calculate the density evaluated at the bin midpoints. More...

void	calcMidpointsLin (double var_min_in, double bin_width_in, int nbins_in, std::vector< double > &midpoints_in)
	Calculate a generic variable midpoints given binning params. More...

Point	elemCentroid (Elem &elem)
	Return the centroid position of an element. More...

void	resetContainers ()
	Clear the containers of elements grouped into bins of constant temp. More...

bool	resetMOAB ()
	Clear MOAB entity sets. More...

bool	findSurface (const moab::Range &region, moab::EntityHandle group, unsigned int &vol_id, unsigned int &surf_id, moab::EntityHandle &volume_set)
	Find the surfaces for the provided range and add to group. More...

bool	write ()
	Write to file. More...

void	communicateDofSet (std::set< dof_id_type > &dofset)
	MPI communication of DOFs of binned elements. More...

Private Attributes
FEProblemBase *	_problem_ptr
	Pointer to the feProblem we care about. More...

std::unique_ptr< moab::Skinner >	skinner
	Pointer to a moab skinner for finding temperature surfaces. More...

std::unique_ptr< moab::GeomTopoTool >	gtt
	Pointer for gtt for setting surface sense. More...

double	lengthscale
	Convert MOOSE units to dagmc length units. More...

double	densityscale
	Convert MOOSE density units to openmc density units. More...

std::map< dof_id_type, std::vector< moab::EntityHandle > >	_id_to_elem_handles
	Map from libmesh id to MOAB element entity handles. More...

moab::EntityHandle	offset
	Save the first tet entity handle. More...

std::string	var_name
	Name of the MOOSE variable. More...

bool	binElems
	Whether or not to perform binning. More...

bool	logscale
	Whether or not to bin in a log scale. More...

double	var_min
	Minimum value of our variable. More...

double	var_max
	Maximum value of our variable for binning on a linear scale. More...

double	bin_width
	Fixed bin width for binning on a linear scale. More...

int	powMin
	Minimum power of 10. More...

int	powMax
	Maximum power of 10. More...

unsigned int	nVarBins
	Number of variable bins to use. More...

unsigned int	nPow
	Number of powers of 10 to bin in for binning on a log scale. More...

unsigned int	nMinor
	Number of minor divisions for binning on a log scale. More...

std::vector< double >	midpoints
	Store the temperature corresponding to the bin mipoint. More...

std::vector< double >	den_midpoints
	Store the relative density corresponding to the bin mipoint. More...

std::string	den_var_name
	Data members relating to binning in density. More...

bool	binByDensity
	Switch to determine if we should bin by material density. More...

double	rel_den_min
	Minimum relative density diff. More...

double	rel_den_max
	Max relative density diff. More...

double	rel_den_bw
	Relative density diff bin width. More...

unsigned int	nDenBins
	Number of relative density bins. More...

unsigned int	nMatBins
	Number of distinct subdomains (e.g. vols, mats) More...

std::vector< std::set< dof_id_type > >	sortedElems
	Container for elems sorted by variable bin and materials. More...

std::map< std::string, std::shared_ptr< MeshFunction > >	meshFunctionPtrs
	A map to store mesh functions against their variable name. More...

std::map< unsigned int, std::unique_ptr< NumericVector< Number > > >	serial_solutions
	A place to store the entire solution. More...

std::vector< std::string >	mat_names
	material names More...

std::vector< std::string >	openmc_mat_names
	OpenMC material names. More...

std::vector< std::set< SubdomainID > >	mat_blocks
	all element blocks assigned to mats More...

std::vector< double >	initialDensities
	vector for initial densities if binning by density More...

moab::EntityHandle	meshset
	An entitiy handle to represent the set of all tets. More...

std::map< moab::EntityHandle, std::vector< VolData > >	surfsToVols
	Save some topological data: map from surface handle to vol handle and sense. More...

moab::Tag	geometry_dimension_tag
	Tag for dimension for geometry. More...

moab::Tag	id_tag
	Tag for entitiy set ID. More...

moab::Tag	faceting_tol_tag
	Tag for faceting tolerance. More...

moab::Tag	geometry_resabs_tag
	Tag needed by DAGMC. More...

moab::Tag	category_tag
	Tag for type of entity set. More...

moab::Tag	name_tag
	Tag for name of entity set. More...

const unsigned int	nNodesPerTet = 4
	Const to encode that MOAB tets have 4 nodes. More...

double	faceting_tol
	Faceting tolerence needed by DAGMC. More...

double	geom_tol
	Geometry tolerence needed by DAGMC. More...

double	scalefactor_inner
	Scalefactors applied to bounding box for inner surface of graveyard. More...

double	scalefactor_outer
	Scalefactors applied to bounding box for outer surface of graveyard. More...

bool	output_skins
	Flag to control whether to save surface skins to file. More...

bool	output_full
	Flag to control whether to output the full MOAB mesh database. More...

std::string	output_base
	Base name of skins output file. More...

std::string	output_base_full
	Base name of full database output file. More...

unsigned int	n_output
	Number of times to write to file. More...

unsigned int	n_period
	Period of writes (skip every n_period -1) More...

unsigned int	n_write
	Count number of times file has been written to. More...

unsigned int	n_its
	Store the number of times writeSurfaces is called. More...

PerfID	_init_timer
	Performance timer for initialisation. More...

PerfID	_update_timer
	Performance timer for update. More...

PerfID	_setsolution_timer
	Performance timer for setSolution. More...

Detailed Description

UserObject class which wraps a moab::Interface pointer.

The main role of this class is to bin elements of the mesh according named variables (presumed temperature and density), and subsequently perform a skinning operation to find the surfaces of these local regions.

Member Enumeration Documentation

◆ Sense

enum MoabUserObject::Sense

private

Encode the whether the surface normal faces into or out of the volume.

Member Function Documentation

◆ addElem()

void MoabUserObject::addElem	(	dof_id_type	id,
		moab::EntityHandle	ent
	)

private

Add an element to maps.

◆ boxCoords()

std::vector< Point > MoabUserObject::boxCoords	(	const BoundingBox &	box,
		double	factor
	)

private

Get the coords of the box back as an array (possibly scaled)

◆ buildGraveyard()

moab::ErrorCode MoabUserObject::buildGraveyard	(	unsigned int &	vol_id,
		unsigned int &	surf_id
	)

private

Build the graveyard (needed by OpenMC)

◆ calcDenMidpoints()

void MoabUserObject::calcDenMidpoints ( )

private

Calculate the density evaluated at the bin midpoints.

◆ calcMidpoints()

void MoabUserObject::calcMidpoints ( )

private

Calculate the variable evaluated at the bin midpoints.

◆ calcMidpointsLin() [1/2]

void MoabUserObject::calcMidpointsLin ( )

private

Calculate the variable evaluated at the bin midpoints for linear binning.

◆ calcMidpointsLin() [2/2]

void MoabUserObject::calcMidpointsLin	(	double	var_min_in,
		double	bin_width_in,
		int	nbins_in,
		std::vector< double > &	midpoints_in
	)

private

Calculate a generic variable midpoints given binning params.

◆ calcMidpointsLog()

void MoabUserObject::calcMidpointsLog ( )

private

Calculate the variable evaluated at the bin midpoints for log binning.

◆ clearElemMaps()

void MoabUserObject::clearElemMaps ( )

private

Clear the maps between entity handles and dof ids.

◆ communicateDofSet()

void MoabUserObject::communicateDofSet ( std::set< dof_id_type > & dofset )

private

MPI communication of DOFs of binned elements.

◆ createCornerTris()

moab::ErrorCode MoabUserObject::createCornerTris	(	const std::vector< moab::EntityHandle > &	verts,
		unsigned int	corner,
		unsigned int	v1,
		unsigned int	v2,
		unsigned int	v3,
		bool	normalout,
		moab::Range &	surface_tris
	)

private

Create 3 tri faces stemming from one corner of a cude (an open tetrahedron)

◆ createElems()

void MoabUserObject::createElems ( std::map< dof_id_type, moab::EntityHandle > & node_id_to_handle )

private

Helper method to create MOAB elements.

◆ createGroup()

moab::ErrorCode MoabUserObject::createGroup	(	unsigned int	id,
		std::string	name,
		moab::EntityHandle &	group_set
	)

private

Helper method to create MOAB group entity set.

◆ createNodes()

moab::ErrorCode MoabUserObject::createNodes ( std::map< dof_id_type, moab::EntityHandle > & node_id_to_handle )

private

Helper method to create MOAB nodes.

◆ createNodesFromBox()

moab::ErrorCode MoabUserObject::createNodesFromBox	(	const BoundingBox &	box,
		double	factor,
		std::vector< moab::EntityHandle > &	vert_handles
	)

private

Create MOAB nodes from a bounding box.

◆ createSurf()

moab::ErrorCode MoabUserObject::createSurf	(	unsigned int	id,
		moab::EntityHandle &	surface_set,
		moab::Range &	faces,
		std::vector< VolData > &	voldata
	)

private

Helper method to create MOAB surface entity set.

◆ createSurfaceFromBox()

moab::ErrorCode MoabUserObject::createSurfaceFromBox	(	const BoundingBox &	box,
		VolData &	voldata,
		unsigned int &	surf_id,
		bool	normalout,
		double	factor = `1.0`
	)

private

Create a MOAB surface from a bounding box.

◆ createSurfaces()

moab::ErrorCode MoabUserObject::createSurfaces	(	moab::Range &	reversed,
		VolData &	voldata,
		unsigned int &	surf_id
	)

private

Helper method to create MOAB surfaces with no overlaps.

◆ createTags()

moab::ErrorCode MoabUserObject::createTags ( )

private

Helper method to create MOAB tags.

◆ createTri()

moab::ErrorCode MoabUserObject::createTri	(	const std::vector< moab::EntityHandle > &	vertices,
		unsigned int	v1,
		unsigned int	v2,
		unsigned int	v3,
		moab::Range &	surface_tris
	)

private

Create MOAB tri surface element.

◆ createVol()

moab::ErrorCode MoabUserObject::createVol	(	unsigned int	id,
		moab::EntityHandle &	volume_set,
		moab::EntityHandle	group_set
	)

private

Helper method to create MOAB volume entity set.

◆ elem_to_soln_index()

dof_id_type MoabUserObject::elem_to_soln_index	(	const Elem &	elem,
		unsigned int	iSysNow,
		unsigned int	iVarNow
	)

private

Helper method to convert between elem / solution indices.

◆ elemCentroid()

Point MoabUserObject::elemCentroid ( Elem & elem )

private

Return the centroid position of an element.

◆ evalMeshFunction()

double MoabUserObject::evalMeshFunction	(	std::shared_ptr< MeshFunction >	meshFunctionPtr,
		const Point &	p
	)

private

Evaluate a mesh function at a point.

◆ execute()

virtual void MoabUserObject::execute ( )

inlinevirtual

Override MOOSE virtual method to do nothing.

◆ finalize()

virtual void MoabUserObject::finalize ( )

inlinevirtual

Override MOOSE virtual method to do nothing.

◆ findMaterials()

void MoabUserObject::findMaterials ( )

private

Look for materials in the FE problem.

◆ findSurface()

bool MoabUserObject::findSurface	(	const moab::Range &	region,
		moab::EntityHandle	group,
		unsigned int &	vol_id,
		unsigned int &	surf_id,
		moab::EntityHandle &	volume_set
	)

private

Find the surfaces for the provided range and add to group.

◆ findSurfaces()

bool MoabUserObject::findSurfaces ( )

private

Group the binned elems into local temperature regions and find their surfaces.

◆ getMatBin() [1/2]

int MoabUserObject::getMatBin	(	int	iVarBin,
		int	iDenBin
	)

inlineprivate

Map density and temp bin indices onto a linearised index with default parameters for number of bins

◆ getMatBin() [2/2]

int MoabUserObject::getMatBin	(	int	iVarBin,
		int	iDenBin,
		int	nVarBinsIn,
		int	nDenBinsIn
	)

private

Map density and temp bin indices onto a linearised index.

◆ getMaterialProperties()

void MoabUserObject::getMaterialProperties	(	std::vector< std::string > &	mat_names_out,
		std::vector< double > &	initial_densities,
		std::vector< std::string > &	tails,
		std::vector< MOABMaterialProperties > &	properties
	)

Retrieve a list of original material names and properties.

◆ getMeshFunction()

std::shared_ptr< MeshFunction > MoabUserObject::getMeshFunction ( std::string var_name_in )

private

Fetch the mesh function associated with a variable.

◆ getRelDensityBin()

int MoabUserObject::getRelDensityBin ( double value )

inlineprivate

Return the bin index of a given relative density.

◆ getResultsBin()

int MoabUserObject::getResultsBin ( double value )

private

Given a value of our variable, find what bin this corresponds to.

◆ getResultsBinLin()

int MoabUserObject::getResultsBinLin ( double value )

inlineprivate

Find results bin if we have linear binning.

◆ getResultsBinLog()

int MoabUserObject::getResultsBinLog ( double value )

private

Find results bin if we have logarithmic.

◆ getSerialisedSolution()

NumericVector< Number > & MoabUserObject::getSerialisedSolution ( libMesh::System * sysPtr )

private

Get a serialised version of solution for a given system.

◆ getSortBin() [1/2]

int MoabUserObject::getSortBin	(	int	iVarBin,
		int	iDenBin,
		int	iMat
	)

inlineprivate

Map material, density and temp bin indices onto a linearised index with default parameters for number of bins

◆ getSortBin() [2/2]

int MoabUserObject::getSortBin	(	int	iVarBin,
		int	iDenBin,
		int	iMat,
		int	nVarBinsIn,
		int	nDenBinsIn,
		int	nMatsIn
	)

private

Map material, density and temp bin indices onto a linearised index.

◆ getTetSets()

bool MoabUserObject::getTetSets	(	ElemType	type,
		std::vector< std::vector< unsigned int > > &	perms
	)

private

Return all sets of node indices for sub-tetrahedra if we have a second order mesh.

◆ groupLocalElems()

void MoabUserObject::groupLocalElems	(	std::set< dof_id_type >	elems,
		std::vector< moab::Range > &	localElems
	)

private

Group a given bin into local regions NB elems in param is a copy, localElems is a reference

◆ hasProblem()

bool MoabUserObject::hasProblem ( )

inline

Check if problem has been set.

◆ initBinningData()

void MoabUserObject::initBinningData ( )

Intialise objects needed to perform binning of elements.

◆ initialize()

virtual void MoabUserObject::initialize ( )

inlinevirtual

Override MOOSE virtual method to do nothing.

◆ initMOAB()

void MoabUserObject::initMOAB ( )

Initialise MOAB.

◆ mesh()

MeshBase & MoabUserObject::mesh ( )

private

Get a modifyable reference to the underlying libmesh mesh.

◆ problem()

FEProblemBase & MoabUserObject::problem ( )

Get a reference to the FE problem.

◆ reset()

void MoabUserObject::reset ( )

Clear mesh data.

◆ resetContainers()

void MoabUserObject::resetContainers ( )

private

Clear the containers of elements grouped into bins of constant temp.

◆ resetMOAB()

bool MoabUserObject::resetMOAB ( )

private

Clear MOAB entity sets.

◆ setMeshFunction()

void MoabUserObject::setMeshFunction ( std::string var_name_in )

private

Create and save a mesh function for the provided variable.

◆ setProblem()

void MoabUserObject::setProblem ( FEProblemBase * problem )

inline

Pass in the FE Problem.

◆ setSolution() [1/2]

bool MoabUserObject::setSolution	(	std::string	var_now,
		std::vector< double > &	results,
		double	scaleFactor = `1.`,
		bool	isErr = `false`,
		bool	normToVol = `true`
	)

Pass the OpenMC results into the libMesh systems solution.

◆ setSolution() [2/2]

void MoabUserObject::setSolution	(	unsigned int	iSysNow,
		unsigned int	iVarNow,
		std::vector< double > &	results,
		double	scaleFactor,
		bool	isErr,
		bool	normToVol
	)

private

Helper method to set the results in a given system and variable.

◆ setTagData() [1/2]

moab::ErrorCode MoabUserObject::setTagData	(	moab::Tag	tag,
		moab::EntityHandle	ent,
		std::string	data,
		unsigned int	SIZE
	)

private

Helper function to wrap moab::tag_set_data for a string.

◆ setTagData() [2/2]

moab::ErrorCode MoabUserObject::setTagData	(	moab::Tag	tag,
		moab::EntityHandle	ent,
		void *	data
	)

private

Helper function to wrap moab::tag_set_data for a generic pointer.

◆ setTags()

moab::ErrorCode MoabUserObject::setTags	(	moab::EntityHandle	ent,
		std::string	name,
		std::string	category,
		unsigned int	id,
		int	dim
	)

private

Generic method to set the tags that DAGMC requires.

◆ sortElemsByResults()

bool MoabUserObject::sortElemsByResults ( )

private

Sort elems in to bins of a given temperature.

◆ system()

System & MoabUserObject::system ( std::string var_now )

private

Get a modifyable reference to the underlying libmesh system.

◆ systems()

EquationSystems & MoabUserObject::systems ( )

private

Get a modifyable reference to the underlying libmesh equation systems.

◆ threadJoin()

virtual void MoabUserObject::threadJoin ( const UserObject & )

inlinevirtual

Override MOOSE virtual method to do nothing.

◆ update()

bool MoabUserObject::update ( )

Update MOAB with any results from MOOSE.

◆ updateSurfData()

moab::ErrorCode MoabUserObject::updateSurfData	(	moab::EntityHandle	surface_set,
		VolData	data
	)

private

Add parent-child metadata relating a surface to its volume.

◆ write()

bool MoabUserObject::write ( )

private

Write to file.

Member Data Documentation

◆ _id_to_elem_handles

std::map<dof_id_type,std::vector<moab::EntityHandle> > MoabUserObject::_id_to_elem_handles

private

Map from libmesh id to MOAB element entity handles.

◆ _init_timer

PerfID MoabUserObject::_init_timer

private

Performance timer for initialisation.

◆ _problem_ptr

FEProblemBase* MoabUserObject::_problem_ptr

private

Pointer to the feProblem we care about.

◆ _setsolution_timer

PerfID MoabUserObject::_setsolution_timer

private

Performance timer for setSolution.

◆ _update_timer

PerfID MoabUserObject::_update_timer

private

Performance timer for update.

◆ bin_width

double MoabUserObject::bin_width

private

Fixed bin width for binning on a linear scale.

◆ binByDensity

bool MoabUserObject::binByDensity

private

Switch to determine if we should bin by material density.

◆ binElems

bool MoabUserObject::binElems

private

Whether or not to perform binning.

◆ category_tag

moab::Tag MoabUserObject::category_tag

private

Tag for type of entity set.

◆ den_midpoints

std::vector<double> MoabUserObject::den_midpoints

private

Store the relative density corresponding to the bin mipoint.

◆ den_var_name

std::string MoabUserObject::den_var_name

private

Data members relating to binning in density.

Name of the MOOSE variable containing the density

◆ densityscale

double MoabUserObject::densityscale

private

Convert MOOSE density units to openmc density units.

◆ faceting_tol

double MoabUserObject::faceting_tol

private

Faceting tolerence needed by DAGMC.

◆ faceting_tol_tag

moab::Tag MoabUserObject::faceting_tol_tag

private

Tag for faceting tolerance.

◆ geom_tol

double MoabUserObject::geom_tol

private

Geometry tolerence needed by DAGMC.

◆ geometry_dimension_tag

moab::Tag MoabUserObject::geometry_dimension_tag

private

Tag for dimension for geometry.

◆ geometry_resabs_tag

moab::Tag MoabUserObject::geometry_resabs_tag

private

Tag needed by DAGMC.

◆ gtt

std::unique_ptr< moab::GeomTopoTool > MoabUserObject::gtt

private

Pointer for gtt for setting surface sense.

◆ id_tag

moab::Tag MoabUserObject::id_tag

private

Tag for entitiy set ID.

◆ initialDensities

std::vector<double> MoabUserObject::initialDensities

private

vector for initial densities if binning by density

◆ lengthscale

double MoabUserObject::lengthscale

private

Convert MOOSE units to dagmc length units.

◆ logscale

bool MoabUserObject::logscale

private

Whether or not to bin in a log scale.

◆ mat_blocks

std::vector< std::set<SubdomainID> > MoabUserObject::mat_blocks

private

all element blocks assigned to mats

◆ mat_names

std::vector<std::string> MoabUserObject::mat_names

private

material names

◆ meshFunctionPtrs

std::map<std::string, std::shared_ptr<MeshFunction> > MoabUserObject::meshFunctionPtrs

private

A map to store mesh functions against their variable name.

◆ meshset

moab::EntityHandle MoabUserObject::meshset

private

An entitiy handle to represent the set of all tets.

◆ midpoints

std::vector<double> MoabUserObject::midpoints

private

Store the temperature corresponding to the bin mipoint.

◆ moabPtr

std::shared_ptr<moab::Interface> MoabUserObject::moabPtr

Publically available pointer to MOAB interface.

◆ n_its

unsigned int MoabUserObject::n_its

private

Store the number of times writeSurfaces is called.

◆ n_output

unsigned int MoabUserObject::n_output

private

Number of times to write to file.

◆ n_period

unsigned int MoabUserObject::n_period

private

Period of writes (skip every n_period -1)

◆ n_write

unsigned int MoabUserObject::n_write

private

Count number of times file has been written to.

◆ name_tag

moab::Tag MoabUserObject::name_tag

private

Tag for name of entity set.

◆ nDenBins

unsigned int MoabUserObject::nDenBins

private

Number of relative density bins.

◆ nMatBins

unsigned int MoabUserObject::nMatBins

private

Number of distinct subdomains (e.g. vols, mats)

◆ nMinor

unsigned int MoabUserObject::nMinor

private

Number of minor divisions for binning on a log scale.

◆ nNodesPerTet

const unsigned int MoabUserObject::nNodesPerTet = 4

private

Const to encode that MOAB tets have 4 nodes.

◆ nPow

unsigned int MoabUserObject::nPow

private

Number of powers of 10 to bin in for binning on a log scale.

◆ nVarBins

unsigned int MoabUserObject::nVarBins

private

Number of variable bins to use.

◆ offset

moab::EntityHandle MoabUserObject::offset

private

Save the first tet entity handle.

◆ openmc_mat_names

std::vector<std::string> MoabUserObject::openmc_mat_names

private

OpenMC material names.

◆ output_base

std::string MoabUserObject::output_base

private

Base name of skins output file.

◆ output_base_full

std::string MoabUserObject::output_base_full

private

Base name of full database output file.

◆ output_full

bool MoabUserObject::output_full

private

Flag to control whether to output the full MOAB mesh database.

◆ output_skins

bool MoabUserObject::output_skins

private

Flag to control whether to save surface skins to file.

◆ powMax

int MoabUserObject::powMax

private

Maximum power of 10.

◆ powMin

int MoabUserObject::powMin

private

Minimum power of 10.

◆ rel_den_bw

double MoabUserObject::rel_den_bw

private

Relative density diff bin width.

◆ rel_den_max

double MoabUserObject::rel_den_max

private

Max relative density diff.

◆ rel_den_min

double MoabUserObject::rel_den_min

private

Minimum relative density diff.

◆ scalefactor_inner

double MoabUserObject::scalefactor_inner

private

Scalefactors applied to bounding box for inner surface of graveyard.

◆ scalefactor_outer

double MoabUserObject::scalefactor_outer

private

Scalefactors applied to bounding box for outer surface of graveyard.

◆ serial_solutions

std::map<unsigned int, std::unique_ptr<NumericVector<Number> > > MoabUserObject::serial_solutions

private

A place to store the entire solution.

◆ skinner

std::unique_ptr< moab::Skinner > MoabUserObject::skinner

private

Pointer to a moab skinner for finding temperature surfaces.

◆ sortedElems

std::vector<std::set<dof_id_type> > MoabUserObject::sortedElems

private

Container for elems sorted by variable bin and materials.

◆ surfsToVols

std::map<moab::EntityHandle, std::vector<VolData> > MoabUserObject::surfsToVols

private

Save some topological data: map from surface handle to vol handle and sense.

◆ var_max

double MoabUserObject::var_max

private

Maximum value of our variable for binning on a linear scale.

◆ var_min

double MoabUserObject::var_min

private

Minimum value of our variable.

◆ var_name

std::string MoabUserObject::var_name

private

Name of the MOOSE variable.

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

openmc/include/userobject/MoabUserObject.h
openmc/src/userobject/MoabUserObject.C

Classes

Public Member Functions

Public Attributes

Private Types

Private Member Functions

Private Attributes

Detailed Description

Member Enumeration Documentation

◆ Sense

Member Function Documentation

◆ addElem()

◆ boxCoords()

◆ buildGraveyard()

◆ calcDenMidpoints()

◆ calcMidpoints()

◆ calcMidpointsLin() [1/2]

◆ calcMidpointsLin() [2/2]

◆ calcMidpointsLog()

◆ clearElemMaps()

◆ communicateDofSet()

◆ createCornerTris()

◆ createElems()

◆ createGroup()

◆ createNodes()

◆ createNodesFromBox()

◆ createSurf()

◆ createSurfaceFromBox()

◆ createSurfaces()

◆ createTags()

◆ createTri()

◆ createVol()

◆ elem_to_soln_index()

◆ elemCentroid()

◆ evalMeshFunction()

◆ execute()

◆ finalize()

◆ findMaterials()

◆ findSurface()

◆ findSurfaces()

◆ getMatBin() [1/2]

◆ getMatBin() [2/2]

◆ getMaterialProperties()

◆ getMeshFunction()

◆ getRelDensityBin()

◆ getResultsBin()

◆ getResultsBinLin()

◆ getResultsBinLog()

◆ getSerialisedSolution()

◆ getSortBin() [1/2]

◆ getSortBin() [2/2]

◆ getTetSets()

◆ groupLocalElems()

◆ hasProblem()

◆ initBinningData()

◆ initialize()

◆ initMOAB()

◆ mesh()

◆ problem()

◆ reset()

◆ resetContainers()

◆ resetMOAB()

◆ setMeshFunction()

◆ setProblem()

◆ setSolution() [1/2]

◆ setSolution() [2/2]

◆ setTagData() [1/2]

◆ setTagData() [2/2]

◆ setTags()

◆ sortElemsByResults()

◆ system()

◆ systems()

◆ threadJoin()

◆ update()

◆ updateSurfData()

◆ write()

Member Data Documentation

◆ _id_to_elem_handles

◆ _init_timer

◆ _problem_ptr

◆ _setsolution_timer