panzer_stk Namespace Reference

Namespaces
	workset_utils
	periodic_helpers

Classes
class	GatherFields
class	GatherRefCoords
class	ScatterCellAvgQuantity
class	ScatterCellAvgVector
class	ScatterCellQuantity
class	ScatterFields
class	ScatterVectorFields
class	IOClosureModelFactory
class	IOClosureModelFactory_TemplateBuilder
class	STKConnManager
class	ModelEvaluatorFactory
class	NOXObserverFactory
class	RythmosObserverFactory
struct	PermFunctor
class	WorksetFactory
class	LocalIdCompare
class	ResponseEvaluatorFactory_SolutionWriter
struct	RespFactorySolnWriter_Builder
class	CubeHexMeshFactory
class	CubeTetMeshFactory
class	CustomMeshFactory
class	ElementDescriptor
class	STK_Interface
class	LineMeshFactory
class	STK_MeshFactory
class	MultiBlockMeshFactory
class	CoordMatcher
class	PlaneMatcher
class	QuarterPlaneMatcher
class	PeriodicBC_MatcherBase
class	PeriodicBC_Matcher
class	PeriodicBC_Parser
class	SculptMeshFactory
class	SquareQuadMeshFactory
class	SquareTriMeshFactory

Functions
template<typename LO , typename GO >
void	generateLocalMeshInfo (const panzer_stk::STK_Interface &mesh, panzer::LocalMeshInfo< LO, GO > &mesh_info)
template Teuchos::RCP < Thyra::LinearOpWithSolveFactoryBase < double > >	buildLOWSFactory< int > (bool blockedAssembly, const Teuchos::RCP< const panzer::UniqueGlobalIndexerBase > &globalIndexer, const Teuchos::RCP< panzer_stk::STKConnManager< int > > &stkConn_manager, int spatialDim, const Teuchos::RCP< const Teuchos::MpiComm< int > > &mpi_comm, const Teuchos::RCP< Teuchos::ParameterList > &strat_params, bool writeCoordinates, bool writeTopo, const Teuchos::RCP< const panzer::UniqueGlobalIndexerBase > &auxGlobalIndexer, bool useCoordinates)
template Teuchos::RCP < Thyra::LinearOpWithSolveFactoryBase < double > >	buildLOWSFactory< panzer::Ordinal64 > (bool blockedAssembly, const Teuchos::RCP< const panzer::UniqueGlobalIndexerBase > &globalIndexer, const Teuchos::RCP< panzer_stk::STKConnManager< panzer::Ordinal64 > > &stkConn_manager, int spatialDim, const Teuchos::RCP< const Teuchos::MpiComm< int > > &mpi_comm, const Teuchos::RCP< Teuchos::ParameterList > &strat_params, bool writeCoordinates, bool writeTopo, const Teuchos::RCP< const panzer::UniqueGlobalIndexerBase > &auxGlobalIndexer, bool useCoordinates)
Teuchos::RCP < Thyra::LinearOpWithSolveFactoryBase < double > >	buildLOWSFactory (bool blockedAssembly, const Teuchos::RCP< const panzer::UniqueGlobalIndexerBase > &globalIndexer, const Teuchos::RCP< panzer::ConnManagerBase< int > > &conn_manager, int spatialDim, const Teuchos::RCP< const Teuchos::MpiComm< int > > &mpi_comm, const Teuchos::RCP< Teuchos::ParameterList > &strat_params, bool writeCoordinates, bool writeTopo, const Teuchos::RCP< const panzer::UniqueGlobalIndexerBase > &auxGlobalIndexer, bool useCoordinates)
template<typename GO >
Teuchos::RCP < Thyra::LinearOpWithSolveFactoryBase < double > >	buildLOWSFactory (bool blockedAssembly, const Teuchos::RCP< const panzer::UniqueGlobalIndexerBase > &globalIndexer, const Teuchos::RCP< panzer_stk::STKConnManager< GO > > &stkConn_manager, int spatialDim, const Teuchos::RCP< const Teuchos::MpiComm< int > > &mpi_comm, const Teuchos::RCP< Teuchos::ParameterList > &strat_params, bool writeCoordinates=false, bool writeTopo=false, const Teuchos::RCP< const panzer::UniqueGlobalIndexerBase > &auxGlobalIndexer=Teuchos::null, bool useCoordinates=true)
Teuchos::RCP< std::vector < panzer::Workset > >	buildWorksets (const panzer_stk::STK_Interface &mesh, const std::string &eBlock, const panzer::WorksetNeeds &needs)
Teuchos::RCP< std::vector < panzer::Workset > >	buildWorksets (const panzer_stk::STK_Interface &mesh, const panzer::WorksetNeeds &needs, const std::string &sideset, const std::string &eBlock, bool useCascade)
Teuchos::RCP< std::map < unsigned, panzer::Workset > >	buildBCWorksets (const panzer_stk::STK_Interface &mesh, const panzer::WorksetNeeds &needs_a, const std::string &blockid_a, const panzer::WorksetNeeds &needs_b, const std::string &blockid_b, const std::string &sideset)
Teuchos::RCP< std::map < unsigned, panzer::Workset > >	buildBCWorksets (const panzer_stk::STK_Interface &mesh, const panzer::WorksetNeeds &needs, const std::string &eblockID, const std::string &sidesetID)
void	computeSidesetNodeNormals (std::unordered_map< unsigned, std::vector< double > > &normals, const Teuchos::RCP< const panzer_stk::STK_Interface > &mesh, const std::string &sidesetName, const std::string &elementBlockName, std::ostream *out=NULL, std::ostream *pout=NULL)
	Computes the normals for all nodes associated with a sideset surface. More...
void	computeSidesetNodeNormals (std::unordered_map< std::size_t, Kokkos::DynRankView< double, PHX::Device > > &elementToNormalMap, const Teuchos::RCP< const panzer_stk::STK_Interface > &mesh, const std::string &sidesetName, const std::string &elementBlockName, std::ostream *out=NULL, std::ostream *pout=NULL)
	Computes the normals for all nodes associated with a sideset surface. More...
template<typename GlobalOrdinal >
static void	gather_in_block (const std::string &blockId, const panzer::UniqueGlobalIndexer< int, GlobalOrdinal > &dofMngr, const Epetra_Vector &x, const std::vector< std::size_t > &localCellIds, std::map< std::string, Kokkos::DynRankView< double, PHX::Device > > &fc)
static void	build_local_ids (const panzer_stk::STK_Interface &mesh, std::map< std::string, Teuchos::RCP< std::vector< std::size_t > > > &localIds)
void	write_cell_data (panzer_stk::STK_Interface &mesh, const std::vector< double > &data, const std::string &fieldName)
template<typename GlobalOrdinal >
void	write_solution_data (const panzer::UniqueGlobalIndexer< int, GlobalOrdinal > &dofMngr, panzer_stk::STK_Interface &mesh, const Epetra_MultiVector &x, const std::string &prefix, const std::string &postfix)
template void	write_solution_data< int > (const panzer::UniqueGlobalIndexer< int, int > &dofMngr, panzer_stk::STK_Interface &mesh, const Epetra_MultiVector &x, const std::string &prefix, const std::string &postfix)
template<typename GlobalOrdinal >
void	write_solution_data (const panzer::UniqueGlobalIndexer< int, GlobalOrdinal > &dofMngr, panzer_stk::STK_Interface &mesh, const Epetra_Vector &x, const std::string &prefix, const std::string &postfix)
template void	write_solution_data< int > (const panzer::UniqueGlobalIndexer< int, int > &dofMngr, panzer_stk::STK_Interface &mesh, const Epetra_Vector &x, const std::string &prefix, const std::string &postfix)
template<typename GlobalOrdinal >
void	gather_in_block (const std::string &blockId, const panzer::UniqueGlobalIndexer< int, GlobalOrdinal > &dofMngr, const Epetra_Vector &x, const std::vector< std::size_t > &localCellIds, std::map< std::string, Kokkos::DynRankView< double, PHX::Device > > &fc)
template<typename RAContainer , class Compare >
void	sorted_permutation (const RAContainer &cont, std::vector< std::size_t > &permutation, const Compare &comp)
template<typename RAContainer >
void	sorted_permutation (const RAContainer &cont, std::vector< std::size_t > &permutation)
std::string	version ()
std::size_t	getElementIdx (const std::vector< stk::mesh::Entity > &elements, stk::mesh::Entity const e)
Teuchos::RCP< ElementDescriptor >	buildElementDescriptor (stk::mesh::EntityId elmtId, std::vector< stk::mesh::EntityId > &nodes)
template<typename Matcher >
Teuchos::RCP < PeriodicBC_MatcherBase >	buildPeriodicBC_Matcher (const std::string &left, const std::string &right, const Matcher &matcher, const std::string type="coord")
static std::string	trim_left (const std::string &s)
static std::string	trim_right (const std::string &s)
static std::string	trim (const std::string &s)

Function Documentation

template<typename LO , typename GO >

void panzer_stk::generateLocalMeshInfo	(	const panzer_stk::STK_Interface &	mesh,
		panzer::LocalMeshInfo< LO, GO > &	mesh_info
	)

Create a structure containing information about the local portion of a given element block

Parameters

[in]

mesh

Reference to STK mesh interface

Returns

Structure containing local mesh information

Definition at line 757 of file Panzer_STK_LocalMeshUtilities.cpp.

template Teuchos::RCP<Thyra::LinearOpWithSolveFactoryBase<double> > panzer_stk::buildLOWSFactory< int >	(	bool	blockedAssembly,
		const Teuchos::RCP< const panzer::UniqueGlobalIndexerBase > &	globalIndexer,
		const Teuchos::RCP< panzer_stk::STKConnManager< int > > &	stkConn_manager,
		int	spatialDim,
		const Teuchos::RCP< const Teuchos::MpiComm< int > > &	mpi_comm,
		const Teuchos::RCP< Teuchos::ParameterList > &	strat_params,
		bool	writeCoordinates,
		bool	writeTopo,
		const Teuchos::RCP< const panzer::UniqueGlobalIndexerBase > &	auxGlobalIndexer,
		bool	useCoordinates
	)

template Teuchos::RCP<Thyra::LinearOpWithSolveFactoryBase<double> > panzer_stk::buildLOWSFactory< panzer::Ordinal64 >	(	bool	blockedAssembly,
		const Teuchos::RCP< const panzer::UniqueGlobalIndexerBase > &	globalIndexer,
		const Teuchos::RCP< panzer_stk::STKConnManager< panzer::Ordinal64 > > &	stkConn_manager,
		int	spatialDim,
		const Teuchos::RCP< const Teuchos::MpiComm< int > > &	mpi_comm,
		const Teuchos::RCP< Teuchos::ParameterList > &	strat_params,
		bool	writeCoordinates,
		bool	writeTopo,
		const Teuchos::RCP< const panzer::UniqueGlobalIndexerBase > &	auxGlobalIndexer,
		bool	useCoordinates
	)

Teuchos::RCP< Thyra::LinearOpWithSolveFactoryBase< double > > panzer_stk::buildLOWSFactory	(	bool	blockedAssembly,
		const Teuchos::RCP< const panzer::UniqueGlobalIndexerBase > &	globalIndexer,
		const Teuchos::RCP< panzer::ConnManagerBase< int > > &	conn_manager,
		int	spatialDim,
		const Teuchos::RCP< const Teuchos::MpiComm< int > > &	mpi_comm,
		const Teuchos::RCP< Teuchos::ParameterList > &	strat_params,
		bool	writeCoordinates,
		bool	writeTopo,
		const Teuchos::RCP< const panzer::UniqueGlobalIndexerBase > &	auxGlobalIndexer,
		bool	useCoordinates
	)

Definition at line 87 of file Panzer_STK_SetupLOWSFactory.cpp.

template<typename GO >

Teuchos::RCP< Thyra::LinearOpWithSolveFactoryBase< double > > panzer_stk::buildLOWSFactory	(	bool	blockedAssembly,
		const Teuchos::RCP< const panzer::UniqueGlobalIndexerBase > &	globalIndexer,
		const Teuchos::RCP< panzer_stk::STKConnManager< GO > > &	stkConn_manager,
		int	spatialDim,
		const Teuchos::RCP< const Teuchos::MpiComm< int > > &	mpi_comm,
		const Teuchos::RCP< Teuchos::ParameterList > &	strat_params,
		bool	writeCoordinates = false,
		bool	writeTopo = false,
		const Teuchos::RCP< const panzer::UniqueGlobalIndexerBase > &	auxGlobalIndexer = Teuchos::null,
		bool	useCoordinates = true
	)

Build LOWS factory.

Definition at line 165 of file Panzer_STK_SetupLOWSFactory_impl.hpp.

Teuchos::RCP< std::vector< panzer::Workset > > panzer_stk::buildWorksets	(	const panzer_stk::STK_Interface &	mesh,
		const std::string &	eBlock,
		const panzer::WorksetNeeds &	needs
	)

Build volumetric worksets for a STK mesh

Parameters

[in]	mesh	A pointer to the STK_Interface used to construct the worksets
[in]	needs	Physics block associated with a particular element block
[in]	eBlock	Element block to build worksets over (the descriptor information)

Returns

vector of worksets for the corresponding element block.

Definition at line 53 of file Panzer_STK_SetupUtilities.cpp.

Teuchos::RCP< std::vector< panzer::Workset > > panzer_stk::buildWorksets	(	const panzer_stk::STK_Interface &	mesh,
		const panzer::WorksetNeeds &	needs,
		const std::string &	sideset,
		const std::string &	eBlock,
		bool	useCascade = false
	)

Build volumetric worksets for a STK mesh with elements that touch a particular sideset.

Parameters

[in]	mesh	A pointer to the STK_Interface used to construct the worksets
[in]	needs	Needs associated with the element block
[in]	workset_size	The size of each workset measured in the number of elements
[in]	sideset	The sideset id used to locate volume elements associated with the sideset
[in]	eBlock	Element block to build worksets over (the descriptor information)
[in]	useCascade	If true, worksets will be built for every local node, edge and face that touches the side set. Note that this implies that the workset will have repeated elements. This is useful for higher-order surface flux calculations.

Returns

vector of worksets for the corresponding element block.

Definition at line 74 of file Panzer_STK_SetupUtilities.cpp.

Teuchos::RCP< std::map< unsigned, panzer::Workset > > panzer_stk::buildBCWorksets	(	const panzer_stk::STK_Interface &	mesh,
		const panzer::WorksetNeeds &	needs_a,
		const std::string &	blockid_a,
		const panzer::WorksetNeeds &	needs_b,
		const std::string &	blockid_b,
		const std::string &	sideset
	)

Build side worksets with elements on both sides (this is for DG)

Parameters

[in]	mesh	A pointer to the STK_Interface used to construct the worksets
[in]	needs_a	Needs of these worksets
[in]	blockid_a	Element block id
[in]	needs_b	Needs of these worksets
[in]	blockid_b	Element block id
[in]	workset_size	The size of each workset measured in the number of elements
[in]	sideset	The sideset id used to locate volume elements associated with the sideset

Returns

vector of worksets for the corresponding edge

Definition at line 193 of file Panzer_STK_SetupUtilities.cpp.

Teuchos::RCP< std::map< unsigned, panzer::Workset > > panzer_stk::buildBCWorksets	(	const panzer_stk::STK_Interface &	mesh,
		const panzer::WorksetNeeds &	needs,
		const std::string &	eblockID,
		const std::string &	sidesetID
	)

Build boundary condition worksets for a STK mesh

Parameters

[in]	mesh	A pointer to the STK_Interface used to construct the worksets
[in]	needs	Physics block associated with the element block
[in]	eblockID	Name of sideset
[in]	sidesetID	Name of sideset

Returns

Map relating local element side IDs to a workset.

Note

All elements for a bc that are associated with a particular side ID are grouped into a single workset

Definition at line 282 of file Panzer_STK_SetupUtilities.cpp.

void panzer_stk::computeSidesetNodeNormals	(	std::unordered_map< unsigned, std::vector< double > > &	normals,
		const Teuchos::RCP< const panzer_stk::STK_Interface > &	mesh,
		const std::string &	sidesetName,
		const std::string &	elementBlockName,
		std::ostream *	out = NULL,
		std::ostream *	pout = NULL
	)

Computes the normals for all nodes associated with a sideset surface.

Computes the node normals for a given side set. This computation will use ghosted element contributions for all surfaces associated with the node, but will only use elements associated with the sideset. So if two sidesets adjoin at the seam, the nodes on the seam will NOT have the same node normal. A simple future addition would be to allow for a list of sidesets to be provided to allow for the union computation.

Parameters

[out]	normals	Map of the node normals (including ghosted nodes). Key is the global id from the stk mesh node entity id and value is vector of the size of the parent element dimension containing the normal vector components. Vector components will be resized on calling this method.
[in]	mesh	(Required) Panzer stk mesh
[in]	sidesetName	(Required) Name of the sideset that the normals will be computed on
[in]	elementBlockName	(Required) Name of the element block that the outward facing normals will be computed on
[in]	out	(Optional) The ostream used for serial debug output on print process only. If non-null this will print debug info.
[in]	pout	(Optional) The ostream used for parallel debug output by all processes. If non-null this will print debug info.

Definition at line 67 of file Panzer_STK_SurfaceNodeNormals.cpp.

void panzer_stk::computeSidesetNodeNormals	(	std::unordered_map< std::size_t, Kokkos::DynRankView< double, PHX::Device > > &	elementToNormalMap,
		const Teuchos::RCP< const panzer_stk::STK_Interface > &	mesh,
		const std::string &	sidesetName,
		const std::string &	elementBlockName,
		std::ostream *	out = NULL,
		std::ostream *	pout = NULL
	)

Computes the normals for all nodes associated with a sideset surface.

Computes the node normals for a given side set. This computation will use ghosted element contributions for all surfaces associated with the node, but will only use elements associated with the sideset. So if two sidesets adjoin at the seam, the nodes on the seam will NOT have the same node normal. A simple future addition would be to allow for a list of sidesets to be provided to allow for the union computation.

Parameters

[out]	normals	Map of the node normals (including ghosted nodes). Key is the panzer_stk::STK_Interface local element id and value is a multidimensional array of the size of the number of nodes times the parent element dimension containing the normal vector components. Vector components will be resized on calling this method.
[in]	mesh	(Required) Panzer stk mesh
[in]	sidesetName	(Required) Name of the sideset that the normals will be computed on
[in]	elementBlockName	(Required) Name of the element block that the outward facing normals will be computed on
[in]	out	(Optional) The ostream used for serial debug output on print process only. If non-null this will print debug info.
[in]	pout	(Optional) The ostream used for parallel debug output by all processes. If non-null this will print debug info.

Definition at line 234 of file Panzer_STK_SurfaceNodeNormals.cpp.

template<typename GlobalOrdinal >

static void panzer_stk::gather_in_block ( const std::string &  blockId, const panzer::UniqueGlobalIndexer< int, GlobalOrdinal > &  dofMngr, const Epetra_Vector &  x, const std::vector< std::size_t > &  localCellIds, std::map< std::string, Kokkos::DynRankView< double, PHX::Device > > &  fc  )

static

Definition at line 134 of file Panzer_STK_Utilities.cpp.

void panzer_stk::build_local_ids ( const panzer_stk::STK_Interface &  mesh, std::map< std::string, Teuchos::RCP< std::vector< std::size_t > > > &  localIds  )

static

Definition at line 171 of file Panzer_STK_Utilities.cpp.

void panzer_stk::write_cell_data	(	panzer_stk::STK_Interface &	mesh,
		const std::vector< double > &	data,
		const std::string &	fieldName
	)

Write a vector to the cell data of a STK mesh. This will look up the cell field prefix+fieldName+postfix, which is assumed to be in the STK mesh object. If not an assertion exeption will be thrown.

Parameters

[in]	mesh	STK mesh object
[in]	data	Vector of doubles equatl to the total number of elements on this processor
[in]	fieldName	Name of field to be written (must be a STK field)

Definition at line 62 of file Panzer_STK_Utilities.cpp.

template<typename GlobalOrdinal >

void panzer_stk::write_solution_data	(	const panzer::UniqueGlobalIndexer< int, GlobalOrdinal > &	dofMngr,
		panzer_stk::STK_Interface &	mesh,
		const Epetra_MultiVector &	x,
		const std::string &	prefix,
		const std::string &	postfix
	)

Definition at line 86 of file Panzer_STK_Utilities.cpp.

template void panzer_stk::write_solution_data< int >	(	const panzer::UniqueGlobalIndexer< int, int > &	dofMngr,
		panzer_stk::STK_Interface &	mesh,
		const Epetra_MultiVector &	x,
		const std::string &	prefix,
		const std::string &	postfix
	)

template<typename GlobalOrdinal >

void panzer_stk::write_solution_data	(	const panzer::UniqueGlobalIndexer< int, GlobalOrdinal > &	dofMngr,
		panzer_stk::STK_Interface &	mesh,
		const Epetra_Vector &	x,
		const std::string &	prefix,
		const std::string &	postfix
	)

Definition at line 99 of file Panzer_STK_Utilities.cpp.

template void panzer_stk::write_solution_data< int >	(	const panzer::UniqueGlobalIndexer< int, int > &	dofMngr,
		panzer_stk::STK_Interface &	mesh,
		const Epetra_Vector &	x,
		const std::string &	prefix,
		const std::string &	postfix
	)

template<typename GlobalOrdinal >

void panzer_stk::gather_in_block	(	const std::string &	blockId,
		const panzer::UniqueGlobalIndexer< int, GlobalOrdinal > &	dofMngr,
		const Epetra_Vector &	x,
		const std::vector< std::size_t > &	localCellIds,
		std::map< std::string, Kokkos::DynRankView< double, PHX::Device > > &	fc
	)

Definition at line 134 of file Panzer_STK_Utilities.cpp.

template<typename RAContainer , class Compare >

void panzer_stk::sorted_permutation	(	const RAContainer &	cont,
		std::vector< std::size_t > &	permutation,
		const Compare &	comp
	)

Using a container, compute the sorted permutation vector do not modifiy the original container.

Motivated by this board on StackOverflow: http://stackoverflow.com/questions/4523220/sorting-a-vector-of-double-precision-reals-and-obtain-their-order

Definition at line 119 of file Panzer_STK_Utilities.hpp.

template<typename RAContainer >

void panzer_stk::sorted_permutation	(	const RAContainer &	cont,
		std::vector< std::size_t > &	permutation
	)

Using a container, compute the sorted permutation vector do not modifiy the original container.

Motivated by this board on StackOverflow: http://stackoverflow.com/questions/4523220/sorting-a-vector-of-double-precision-reals-and-obtain-their-order

Definition at line 112 of file Panzer_STK_Utilities.hpp.

std::string panzer_stk::version

(

)

Definition at line 48 of file Panzer_STK_Version.cpp.

std::size_t panzer_stk::getElementIdx ( const std::vector< stk::mesh::Entity > &  elements, stk::mesh::Entity const  e  )

inline

Definition at line 407 of file Panzer_STKConnManager_impl.hpp.

Teuchos::RCP< ElementDescriptor > panzer_stk::buildElementDescriptor	(	stk::mesh::EntityId	elmtId,
		std::vector< stk::mesh::EntityId > &	nodes
	)

Constructor function for building the element descriptors.

Definition at line 87 of file Panzer_STK_Interface.cpp.

template<typename Matcher >

Teuchos::RCP<PeriodicBC_MatcherBase> panzer_stk::buildPeriodicBC_Matcher	(	const std::string &	left,
		const std::string &	right,
		const Matcher &	matcher,
		const std::string	type = "coord"
	)

A simple constructor function for building a matcher object. This prevents the need to directly instantiate the templated derived class. It is a convenience.

Definition at line 233 of file Panzer_STK_PeriodicBC_Matcher.hpp.

static std::string panzer_stk::trim_left ( const std::string &  s )

static

Definition at line 164 of file Panzer_STK_PeriodicBC_Parser.cpp.

static std::string panzer_stk::trim_right ( const std::string &  s )

static

Definition at line 171 of file Panzer_STK_PeriodicBC_Parser.cpp.

static std::string panzer_stk::trim ( const std::string &  s )

static

Definition at line 178 of file Panzer_STK_PeriodicBC_Parser.cpp.