#include <DisContField3D.h>

Inheritance diagram for Nektar::MultiRegions::DisContField3D:

Collaboration diagram for Nektar::MultiRegions::DisContField3D:

Public Member Functions
	DisContField3D ()
	Default constructor. More...

	DisContField3D (const LibUtilities::SessionReaderSharedPtr &pSession, const SpatialDomains::MeshGraphSharedPtr &graph3D, const std::string &variable, const bool SetUpJustDG=true)
	Constructs a global discontinuous field based on an input mesh with boundary conditions. More...

	DisContField3D (const DisContField3D &In, const SpatialDomains::MeshGraphSharedPtr &graph3D, const std::string &variable, const bool SetUpJustDG=false)

	DisContField3D (const DisContField3D &In)
	Constructs a global discontinuous field based on another discontinuous field. More...

virtual	~DisContField3D ()
	Destructor. More...

GlobalLinSysSharedPtr	GetGlobalBndLinSys (const GlobalLinSysKey &mkey)

void	EvaluateHDGPostProcessing (Array< OneD, NekDouble > &outarray)
	Evaluate HDG post-processing to increase polynomial order of solution. More...

bool	GetLeftAdjacentFaces (int cnt)

Public Member Functions inherited from Nektar::MultiRegions::ExpList3D
	ExpList3D ()
	Default constructor. More...

	ExpList3D (const ExpList3D &In)
	Copy constructor. More...

	ExpList3D (const ExpList3D &In, const std::vector< unsigned int > &eIDs, const bool DeclareCoeffPhysArrays=true)
	Constructor copying only elements defined in eIds. More...

	ExpList3D (const LibUtilities::SessionReaderSharedPtr &pSession, const LibUtilities::BasisKey &TBa, const LibUtilities::BasisKey &TBb, const LibUtilities::BasisKey &TBc, const LibUtilities::BasisKey &HBa, const LibUtilities::BasisKey &HBb, const LibUtilities::BasisKey &HBc, const SpatialDomains::MeshGraphSharedPtr &graph3D, const LibUtilities::PointsType TetNb=LibUtilities::SIZE_PointsType)

	ExpList3D (const LibUtilities::SessionReaderSharedPtr &pSession, const SpatialDomains::MeshGraphSharedPtr &graph3D, const std::string &variable="DefaultVar")
	Sets up a list of local expansions based on an input mesh. More...

	ExpList3D (const SpatialDomains::ExpansionMap &expansions)
	Sets up a list of local expansions based on an expansion vector. More...

virtual	~ExpList3D ()
	Destructor. More...

Public Member Functions inherited from Nektar::MultiRegions::ExpList
	ExpList ()
	The default constructor. More...

	ExpList (const LibUtilities::SessionReaderSharedPtr &pSession)
	The default constructor. More...

	ExpList (const LibUtilities::SessionReaderSharedPtr &pSession, const SpatialDomains::MeshGraphSharedPtr &pGraph)
	The default constructor. More...

	ExpList (const ExpList &in, const std::vector< unsigned int > &eIDs, const bool DeclareCoeffPhysArrays=true)
	Constructor copying only elements defined in eIds. More...

	ExpList (const ExpList &in, const bool DeclareCoeffPhysArrays=true)
	The copy constructor. More...

virtual	~ExpList ()
	The default destructor. More...

int	GetNcoeffs (void) const
	Returns the total number of local degrees of freedom $N_{\mathrm{eof}}=\sum_{e=1}^{{N_{\mathrm{el}}}}N^{e}_m$ . More...

int	GetNcoeffs (const int eid) const
	Returns the total number of local degrees of freedom for element eid. More...

ExpansionType	GetExpType (void)
	Returns the type of the expansion. More...

void	SetExpType (ExpansionType Type)
	Returns the type of the expansion. More...

int	EvalBasisNumModesMax (void) const
	Evaulates the maximum number of modes in the elemental basis order over all elements. More...

const Array< OneD, int >	EvalBasisNumModesMaxPerExp (void) const
	Returns the vector of the number of modes in the elemental basis order over all elements. More...

int	GetTotPoints (void) const
	Returns the total number of quadrature points m_npoints $=Q_{\mathrm{tot}}$ . More...

int	GetTotPoints (const int eid) const
	Returns the total number of quadrature points for eid's element $=Q_{\mathrm{tot}}$ . More...

int	GetNpoints (void) const
	Returns the total number of quadrature points m_npoints $=Q_{\mathrm{tot}}$ . More...

int	Get1DScaledTotPoints (const NekDouble scale) const
	Returns the total number of qudature points scaled by the factor scale on each 1D direction. More...

void	SetWaveSpace (const bool wavespace)
	Sets the wave space to the one of the possible configuration true or false. More...

void	SetModifiedBasis (const bool modbasis)
	Set Modified Basis for the stability analysis. More...

void	SetPhys (int i, NekDouble val)
	Set the i th value of m_phys to value val. More...

bool	GetWaveSpace (void) const
	This function returns the third direction expansion condition, which can be in wave space (coefficient) or not It is stored in the variable m_WaveSpace. More...

void	SetPhys (const Array< OneD, const NekDouble > &inarray)
	Fills the array m_phys. More...

void	SetPhysArray (Array< OneD, NekDouble > &inarray)
	Sets the array m_phys. More...

void	SetPhysState (const bool physState)
	This function manually sets whether the array of physical values $\boldsymbol{u}_l$ (implemented as m_phys) is filled or not. More...

bool	GetPhysState (void) const
	This function indicates whether the array of physical values $\boldsymbol{u}_l$ (implemented as m_phys) is filled or not. More...

NekDouble	PhysIntegral (void)
	This function integrates a function $f(\boldsymbol{x})$ over the domain consisting of all the elements of the expansion. More...

NekDouble	PhysIntegral (const Array< OneD, const NekDouble > &inarray)
	This function integrates a function $f(\boldsymbol{x})$ over the domain consisting of all the elements of the expansion. More...

void	IProductWRTBase_IterPerExp (const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray)
	This function calculates the inner product of a function $f(\boldsymbol{x})$ with respect to all {local} expansion modes $\phi_n^e(\boldsymbol{x})$ . More...

void	IProductWRTBase (const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray, CoeffState coeffstate=eLocal)

void	IProductWRTDerivBase (const int dir, const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray)
	This function calculates the inner product of a function $f(\boldsymbol{x})$ with respect to the derivative (in direction. More...

void	IProductWRTDerivBase (const Array< OneD, const Array< OneD, NekDouble > > &inarray, Array< OneD, NekDouble > &outarray)
	This function calculates the inner product of a function $f(\boldsymbol{x})$ with respect to the derivative (in direction. More...

void	FwdTrans_IterPerExp (const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray)
	This function elementally evaluates the forward transformation of a function $u(\boldsymbol{x})$ onto the global spectral/hp expansion. More...

void	FwdTrans (const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray, CoeffState coeffstate=eLocal)

void	MultiplyByElmtInvMass (const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray)
	This function elementally mulplies the coefficient space of Sin my the elemental inverse of the mass matrix. More...

void	MultiplyByInvMassMatrix (const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray, CoeffState coeffstate=eLocal)

void	SmoothField (Array< OneD, NekDouble > &field)
	Smooth a field across elements. More...

void	HelmSolve (const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray, const FlagList &flags, const StdRegions::ConstFactorMap &factors, const StdRegions::VarCoeffMap &varcoeff=StdRegions::NullVarCoeffMap, const Array< OneD, const NekDouble > &dirForcing=NullNekDouble1DArray, const bool PhysSpaceForcing=true)
	Solve helmholtz problem. More...

void	LinearAdvectionDiffusionReactionSolve (const Array< OneD, Array< OneD, NekDouble > > &velocity, const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray, const NekDouble lambda, CoeffState coeffstate=eLocal, const Array< OneD, const NekDouble > &dirForcing=NullNekDouble1DArray)
	Solve Advection Diffusion Reaction. More...

void	LinearAdvectionReactionSolve (const Array< OneD, Array< OneD, NekDouble > > &velocity, const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray, const NekDouble lambda, CoeffState coeffstate=eLocal, const Array< OneD, const NekDouble > &dirForcing=NullNekDouble1DArray)
	Solve Advection Diffusion Reaction. More...

void	FwdTrans_BndConstrained (const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray)

void	BwdTrans_IterPerExp (const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray)
	This function elementally evaluates the backward transformation of the global spectral/hp element expansion. More...

void	BwdTrans (const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray, CoeffState coeffstate=eLocal)

void	GetCoords (Array< OneD, NekDouble > &coord_0, Array< OneD, NekDouble > &coord_1=NullNekDouble1DArray, Array< OneD, NekDouble > &coord_2=NullNekDouble1DArray)
	This function calculates the coordinates of all the elemental quadrature points $\boldsymbol{x}_i$ . More...

void	HomogeneousFwdTrans (const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray, CoeffState coeffstate=eLocal, bool Shuff=true, bool UnShuff=true)

void	HomogeneousBwdTrans (const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray, CoeffState coeffstate=eLocal, bool Shuff=true, bool UnShuff=true)

void	DealiasedProd (const Array< OneD, NekDouble > &inarray1, const Array< OneD, NekDouble > &inarray2, Array< OneD, NekDouble > &outarray, CoeffState coeffstate=eLocal)

void	DealiasedDotProd (const Array< OneD, Array< OneD, NekDouble > > &inarray1, const Array< OneD, Array< OneD, NekDouble > > &inarray2, Array< OneD, Array< OneD, NekDouble > > &outarray, CoeffState coeffstate=eLocal)

void	GetBCValues (Array< OneD, NekDouble > &BndVals, const Array< OneD, NekDouble > &TotField, int BndID)

void	NormVectorIProductWRTBase (Array< OneD, const NekDouble > &V1, Array< OneD, const NekDouble > &V2, Array< OneD, NekDouble > &outarray, int BndID)

void	NormVectorIProductWRTBase (Array< OneD, Array< OneD, NekDouble > > &V, Array< OneD, NekDouble > &outarray)

void	ApplyGeomInfo ()
	Apply geometry information to each expansion. More...

void	Reset ()
	Reset geometry information and reset matrices. More...

void	WriteTecplotHeader (std::ostream &outfile, std::string var="")

void	WriteTecplotZone (std::ostream &outfile, int expansion=-1)

void	WriteTecplotField (std::ostream &outfile, int expansion=-1)

void	WriteTecplotConnectivity (std::ostream &outfile, int expansion=-1)

void	WriteVtkHeader (std::ostream &outfile)

void	WriteVtkFooter (std::ostream &outfile)

void	WriteVtkPieceHeader (std::ostream &outfile, int expansion, int istrip=0)

void	WriteVtkPieceFooter (std::ostream &outfile, int expansion)

void	WriteVtkPieceData (std::ostream &outfile, int expansion, std::string var="v")

int	GetCoordim (int eid)
	This function returns the dimension of the coordinates of the element eid. More...

void	SetCoeff (int i, NekDouble val)
	Set the i th coefficiient in m_coeffs to value val. More...

void	SetCoeffs (int i, NekDouble val)
	Set the i th coefficiient in m_coeffs to value val. More...

void	SetCoeffsArray (Array< OneD, NekDouble > &inarray)
	Set the m_coeffs array to inarray. More...

const Array< OneD, const NekDouble > &	GetCoeffs () const
	This function returns (a reference to) the array $\boldsymbol{\hat{u}}_l$ (implemented as m_coeffs) containing all local expansion coefficients. More...

void	ImposeDirichletConditions (Array< OneD, NekDouble > &outarray)
	Impose Dirichlet Boundary Conditions onto Array. More...

void	FillBndCondFromField (void)
	Fill Bnd Condition expansion from the values stored in expansion. More...

void	FillBndCondFromField (const int nreg)
	Fill Bnd Condition expansion in nreg from the values stored in expansion. More...

void	LocalToGlobal (bool useComm=true)
	Gathers the global coefficients $\boldsymbol{\hat{u}}_g$ from the local coefficients $\boldsymbol{\hat{u}}_l$ . More...

void	LocalToGlobal (const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray, bool useComm=true)

void	GlobalToLocal (void)
	Scatters from the global coefficients $\boldsymbol{\hat{u}}_g$ to the local coefficients $\boldsymbol{\hat{u}}_l$ . More...

void	GlobalToLocal (const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray)

NekDouble	GetCoeff (int i)
	Get the i th value (coefficient) of m_coeffs. More...

NekDouble	GetCoeffs (int i)
	Get the i th value (coefficient) of m_coeffs. More...

const Array< OneD, const NekDouble > &	GetPhys () const
	This function returns (a reference to) the array $\boldsymbol{u}_l$ (implemented as m_phys) containing the function $u^{\delta}(\boldsymbol{x})$ evaluated at the quadrature points. More...

NekDouble	Linf (const Array< OneD, const NekDouble > &inarray, const Array< OneD, const NekDouble > &soln=NullNekDouble1DArray)
	This function calculates the $L_\infty$ error of the global spectral/hp element approximation. More...

NekDouble	L2 (const Array< OneD, const NekDouble > &inarray, const Array< OneD, const NekDouble > &soln=NullNekDouble1DArray)
	This function calculates the error with respect to soln of the global spectral/hp element approximation. More...

NekDouble	H1 (const Array< OneD, const NekDouble > &inarray, const Array< OneD, const NekDouble > &soln=NullNekDouble1DArray)
	Calculates the error of the global spectral/hp element approximation. More...

NekDouble	Integral (const Array< OneD, const NekDouble > &inarray)

Array< OneD, const NekDouble >	HomogeneousEnergy (void)
	This function calculates the energy associated with each one of the modesof a 3D homogeneous nD expansion. More...

void	SetHomo1DSpecVanVisc (Array< OneD, NekDouble > visc)
	This function sets the Spectral Vanishing Viscosity in homogeneous1D expansion. More...

Array< OneD, const unsigned int >	GetZIDs (void)
	This function returns a vector containing the wave numbers in z-direction associated with the 3D homogenous expansion. Required if a parellelisation is applied in the Fourier direction. More...

LibUtilities::TranspositionSharedPtr	GetTransposition (void)
	This function returns the transposition class associaed with the homogeneous expansion. More...

NekDouble	GetHomoLen (void)
	This function returns the Width of homogeneous direction associaed with the homogeneous expansion. More...

Array< OneD, const unsigned int >	GetYIDs (void)
	This function returns a vector containing the wave numbers in y-direction associated with the 3D homogenous expansion. Required if a parellelisation is applied in the Fourier direction. More...

void	PhysInterp1DScaled (const NekDouble scale, const Array< OneD, NekDouble > &inarray, Array< OneD, NekDouble > &outarray)
	This function interpolates the physical space points in inarray to outarray using the same points defined in the expansion but where the number of points are rescaled by 1DScale. More...

void	PhysGalerkinProjection1DScaled (const NekDouble scale, const Array< OneD, NekDouble > &inarray, Array< OneD, NekDouble > &outarray)
	This function Galerkin projects the physical space points in inarray to outarray where inarray is assumed to be defined in the expansion but where the number of points are rescaled by 1DScale. More...

int	GetExpSize (void)
	This function returns the number of elements in the expansion. More...

int	GetNumElmts (void)
	This function returns the number of elements in the expansion which may be different for a homogeoenous extended expansionp. More...

const boost::shared_ptr < LocalRegions::ExpansionVector >	GetExp () const
	This function returns the vector of elements in the expansion. More...

LocalRegions::ExpansionSharedPtr &	GetExp (int n) const
	This function returns (a shared pointer to) the local elemental expansion of the $n^{\mathrm{th}}$ element. More...

LocalRegions::ExpansionSharedPtr &	GetExp (const Array< OneD, const NekDouble > &gloCoord)
	This function returns (a shared pointer to) the local elemental expansion containing the arbitrary point given by gloCoord. More...

int	GetExpIndex (const Array< OneD, const NekDouble > &gloCoord, NekDouble tol=0.0, bool returnNearestElmt=false)

int	GetExpIndex (const Array< OneD, const NekDouble > &gloCoords, Array< OneD, NekDouble > &locCoords, NekDouble tol=0.0, bool returnNearestElmt=false)

int	GetCoeff_Offset (int n) const
	Get the start offset position for a global list of m_coeffs correspoinding to element n. More...

int	GetPhys_Offset (int n) const
	Get the start offset position for a global list of m_phys correspoinding to element n. More...

int	GetOffset_Elmt_Id (int n) const
	Get the element id associated with the n th consecutive block of data in m_phys and m_coeffs. More...

Array< OneD, NekDouble > &	UpdateCoeffs ()
	This function returns (a reference to) the array $\boldsymbol{\hat{u}}_l$ (implemented as m_coeffs) containing all local expansion coefficients. More...

Array< OneD, NekDouble > &	UpdatePhys ()
	This function returns (a reference to) the array $\boldsymbol{u}_l$ (implemented as m_phys) containing the function $u^{\delta}(\boldsymbol{x})$ evaluated at the quadrature points. More...

void	PhysDeriv (Direction edir, const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &out_d)

void	PhysDeriv (const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &out_d0, Array< OneD, NekDouble > &out_d1=NullNekDouble1DArray, Array< OneD, NekDouble > &out_d2=NullNekDouble1DArray)
	This function discretely evaluates the derivative of a function $f(\boldsymbol{x})$ on the domain consisting of all elements of the expansion. More...

void	PhysDeriv (const int dir, const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &out_d)

void	CurlCurl (Array< OneD, Array< OneD, NekDouble > > &Vel, Array< OneD, Array< OneD, NekDouble > > &Q)

const Array< OneD, const boost::shared_ptr< ExpList > > &	GetBndCondExpansions ()

boost::shared_ptr< ExpList > &	UpdateBndCondExpansion (int i)

void	Upwind (const Array< OneD, const Array< OneD, NekDouble > > &Vec, const Array< OneD, const NekDouble > &Fwd, const Array< OneD, const NekDouble > &Bwd, Array< OneD, NekDouble > &Upwind)

void	Upwind (const Array< OneD, const NekDouble > &Vn, const Array< OneD, const NekDouble > &Fwd, const Array< OneD, const NekDouble > &Bwd, Array< OneD, NekDouble > &Upwind)

boost::shared_ptr< ExpList > &	GetTrace ()

boost::shared_ptr < AssemblyMapDG > &	GetTraceMap (void)

const Array< OneD, const int > &	GetTraceBndMap (void)

void	GetNormals (Array< OneD, Array< OneD, NekDouble > > &normals)

void	AddTraceIntegral (const Array< OneD, const NekDouble > &Fx, const Array< OneD, const NekDouble > &Fy, Array< OneD, NekDouble > &outarray)

void	AddTraceIntegral (const Array< OneD, const NekDouble > &Fn, Array< OneD, NekDouble > &outarray)

void	AddFwdBwdTraceIntegral (const Array< OneD, const NekDouble > &Fwd, const Array< OneD, const NekDouble > &Bwd, Array< OneD, NekDouble > &outarray)

void	GetFwdBwdTracePhys (Array< OneD, NekDouble > &Fwd, Array< OneD, NekDouble > &Bwd)

void	GetFwdBwdTracePhys (const Array< OneD, const NekDouble > &field, Array< OneD, NekDouble > &Fwd, Array< OneD, NekDouble > &Bwd)

const std::vector< bool > &	GetLeftAdjacentFaces (void) const

void	ExtractTracePhys (Array< OneD, NekDouble > &outarray)

void	ExtractTracePhys (const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray)

const Array< OneD, const SpatialDomains::BoundaryConditionShPtr > &	GetBndConditions ()

Array< OneD, SpatialDomains::BoundaryConditionShPtr > &	UpdateBndConditions ()

void	EvaluateBoundaryConditions (const NekDouble time=0.0, const std::string varName="", const NekDouble=NekConstants::kNekUnsetDouble, const NekDouble=NekConstants::kNekUnsetDouble)

void	GeneralMatrixOp (const GlobalMatrixKey &gkey, const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray, CoeffState coeffstate=eLocal)
	This function calculates the result of the multiplication of a matrix of type specified by mkey with a vector given by inarray. More...

void	GeneralMatrixOp_IterPerExp (const GlobalMatrixKey &gkey, const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray)

void	SetUpPhysNormals ()

void	GetBoundaryToElmtMap (Array< OneD, int > &ElmtID, Array< OneD, int > &EdgeID)

void	GetBndElmtExpansion (int i, boost::shared_ptr< ExpList > &result, const bool DeclareCoeffPhysArrays=true)

void	ExtractElmtToBndPhys (int i, Array< OneD, NekDouble > &elmt, Array< OneD, NekDouble > &boundary)

void	ExtractPhysToBndElmt (int i, const Array< OneD, const NekDouble > &phys, Array< OneD, NekDouble > &bndElmt)

void	ExtractPhysToBnd (int i, const Array< OneD, const NekDouble > &phys, Array< OneD, NekDouble > &bnd)

void	GetBoundaryNormals (int i, Array< OneD, Array< OneD, NekDouble > > &normals)

void	GeneralGetFieldDefinitions (std::vector< LibUtilities::FieldDefinitionsSharedPtr > &fielddef, int NumHomoDir=0, Array< OneD, LibUtilities::BasisSharedPtr > &HomoBasis=LibUtilities::NullBasisSharedPtr1DArray, std::vector< NekDouble > &HomoLen=LibUtilities::NullNekDoubleVector, bool homoStrips=false, std::vector< unsigned int > &HomoSIDs=LibUtilities::NullUnsignedIntVector, std::vector< unsigned int > &HomoZIDs=LibUtilities::NullUnsignedIntVector, std::vector< unsigned int > &HomoYIDs=LibUtilities::NullUnsignedIntVector)

const NekOptimize::GlobalOptParamSharedPtr &	GetGlobalOptParam (void)

std::map< int, RobinBCInfoSharedPtr >	GetRobinBCInfo ()

void	GetPeriodicEntities (PeriodicMap &periodicVerts, PeriodicMap &periodicEdges, PeriodicMap &periodicFaces=NullPeriodicMap)

std::vector < LibUtilities::FieldDefinitionsSharedPtr >	GetFieldDefinitions ()

void	GetFieldDefinitions (std::vector< LibUtilities::FieldDefinitionsSharedPtr > &fielddef)

void	AppendFieldData (LibUtilities::FieldDefinitionsSharedPtr &fielddef, std::vector< NekDouble > &fielddata)
	Append the element data listed in elements fielddef->m_ElementIDs onto fielddata. More...

void	AppendFieldData (LibUtilities::FieldDefinitionsSharedPtr &fielddef, std::vector< NekDouble > &fielddata, Array< OneD, NekDouble > &coeffs)
	Append the data in coeffs listed in elements fielddef->m_ElementIDs onto fielddata. More...

void	ExtractElmtDataToCoeffs (LibUtilities::FieldDefinitionsSharedPtr &fielddef, std::vector< NekDouble > &fielddata, std::string &field, Array< OneD, NekDouble > &coeffs)
	Extract the data in fielddata into the coeffs using the basic ExpList Elemental expansions rather than planes in homogeneous case. More...

void	ExtractCoeffsToCoeffs (const boost::shared_ptr< ExpList > &fromExpList, const Array< OneD, const NekDouble > &fromCoeffs, Array< OneD, NekDouble > &toCoeffs)
	Extract the data from fromField using fromExpList the coeffs using the basic ExpList Elemental expansions rather than planes in homogeneous case. More...

void	ExtractDataToCoeffs (LibUtilities::FieldDefinitionsSharedPtr &fielddef, std::vector< NekDouble > &fielddata, std::string &field, Array< OneD, NekDouble > &coeffs)
	Extract the data in fielddata into the coeffs. More...

boost::shared_ptr< ExpList >	GetSharedThisPtr ()
	Returns a shared pointer to the current object. More...

boost::shared_ptr < LibUtilities::SessionReader >	GetSession () const
	Returns the session object. More...

boost::shared_ptr < LibUtilities::Comm >	GetComm ()
	Returns the comm object. More...

SpatialDomains::MeshGraphSharedPtr	GetGraph ()

LibUtilities::BasisSharedPtr	GetHomogeneousBasis (void)

boost::shared_ptr< ExpList > &	GetPlane (int n)

void	CreateCollections (Collections::ImplementationType ImpType=Collections::eNoImpType)
	Construct collections of elements containing a single element type and polynomial order from the list of expansions. More...

void	ClearGlobalLinSysManager (void)

Public Attributes
Array< OneD, int >	m_BCtoElmMap

Array< OneD, int >	m_BCtoFaceMap

Public Attributes inherited from Nektar::MultiRegions::ExpList
ExpansionType	m_expType

Protected Member Functions
void	SetUpDG (const std::string="DefaultVar")
	Set up all DG member variables and maps. More...

bool	SameTypeOfBoundaryConditions (const DisContField3D &In)

void	GenerateBoundaryConditionExpansion (const SpatialDomains::MeshGraphSharedPtr &graph3D, const SpatialDomains::BoundaryConditions &bcs, const std::string &variable)

void	FindPeriodicFaces (const SpatialDomains::BoundaryConditions &bcs, const std::string &variable)
	Determine the periodic faces, edges and vertices for the given graph. More...

bool	IsLeftAdjacentFace (const int n, const int e)

virtual void	v_GetFwdBwdTracePhys (Array< OneD, NekDouble > &Fwd, Array< OneD, NekDouble > &Bwd)
	This method extracts the "forward" and "backward" trace data from the array field and puts the data into output vectors Fwd and Bwd. More...

virtual void	v_GetFwdBwdTracePhys (const Array< OneD, const NekDouble > &field, Array< OneD, NekDouble > &Fwd, Array< OneD, NekDouble > &Bwd)

virtual const std::vector< bool > &	v_GetLeftAdjacentFaces (void) const

virtual void	v_ExtractTracePhys (Array< OneD, NekDouble > &outarray)

virtual void	v_ExtractTracePhys (const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray)

virtual void	v_AddTraceIntegral (const Array< OneD, const NekDouble > &Fn, Array< OneD, NekDouble > &outarray)
	Add trace contributions into elemental coefficient spaces. More...

virtual void	v_AddFwdBwdTraceIntegral (const Array< OneD, const NekDouble > &Fwd, const Array< OneD, const NekDouble > &Bwd, Array< OneD, NekDouble > &outarray)
	Add trace contributions into elemental coefficient spaces. More...

virtual void	v_HelmSolve (const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray, const FlagList &flags, const StdRegions::ConstFactorMap &factors, const StdRegions::VarCoeffMap &varcoeff, const Array< OneD, const NekDouble > &dirForcing, const bool PhysSpaceForcing)

virtual void	v_GeneralMatrixOp (const GlobalMatrixKey &gkey, const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray, CoeffState coeffstate=eLocal)
	Calculates the result of the multiplication of a global matrix of type specified by mkey with a vector given by inarray. More...

virtual void	v_GetBoundaryToElmtMap (Array< OneD, int > &ElmtID, Array< OneD, int > &FaceID)
	Set up a list of elemeent IDs and edge IDs that link to the boundary conditions. More...

virtual void	v_GetBndElmtExpansion (int i, boost::shared_ptr< ExpList > &result, const bool DeclareCoeffPhysArrays)

virtual void	v_Reset ()
	Reset this field, so that geometry information can be updated. More...

virtual void	v_GetPeriodicEntities (PeriodicMap &periodicVerts, PeriodicMap &periodicEdges, PeriodicMap &periodicFaces)

virtual ExpListSharedPtr &	v_GetTrace ()

virtual AssemblyMapDGSharedPtr &	v_GetTraceMap ()

virtual const Array< OneD, const MultiRegions::ExpListSharedPtr > &	v_GetBndCondExpansions ()

virtual const Array< OneD, const SpatialDomains::BoundaryConditionShPtr > &	v_GetBndConditions ()

virtual MultiRegions::ExpListSharedPtr &	v_UpdateBndCondExpansion (int i)

virtual Array< OneD, SpatialDomains::BoundaryConditionShPtr > &	v_UpdateBndConditions ()

virtual void	v_EvaluateBoundaryConditions (const NekDouble time=0.0, const std::string varName="", const NekDouble x2_in=NekConstants::kNekUnsetDouble, const NekDouble x3_in=NekConstants::kNekUnsetDouble)
	This function evaluates the boundary conditions at a certain time-level. More...

virtual std::map< int, RobinBCInfoSharedPtr >	v_GetRobinBCInfo ()

Protected Member Functions inherited from Nektar::MultiRegions::ExpList3D
virtual void	v_SetUpPhysNormals ()
	Set up the normals on each expansion. More...

Protected Member Functions inherited from Nektar::MultiRegions::ExpList
boost::shared_ptr< DNekMat >	GenGlobalMatrixFull (const GlobalLinSysKey &mkey, const boost::shared_ptr< AssemblyMapCG > &locToGloMap)

const DNekScalBlkMatSharedPtr	GenBlockMatrix (const GlobalMatrixKey &gkey)
	This function assembles the block diagonal matrix of local matrices of the type mtype. More...

const DNekScalBlkMatSharedPtr &	GetBlockMatrix (const GlobalMatrixKey &gkey)

void	MultiplyByBlockMatrix (const GlobalMatrixKey &gkey, const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray)

boost::shared_ptr< GlobalMatrix >	GenGlobalMatrix (const GlobalMatrixKey &mkey, const boost::shared_ptr< AssemblyMapCG > &locToGloMap)
	Generates a global matrix from the given key and map. More...

void	GlobalEigenSystem (const boost::shared_ptr< DNekMat > &Gmat, Array< OneD, NekDouble > &EigValsReal, Array< OneD, NekDouble > &EigValsImag, Array< OneD, NekDouble > &EigVecs=NullNekDouble1DArray)

boost::shared_ptr< GlobalLinSys >	GenGlobalLinSys (const GlobalLinSysKey &mkey, const boost::shared_ptr< AssemblyMapCG > &locToGloMap)
	This operation constructs the global linear system of type mkey. More...

boost::shared_ptr< GlobalLinSys >	GenGlobalBndLinSys (const GlobalLinSysKey &mkey, const AssemblyMapSharedPtr &locToGloMap)
	Generate a GlobalLinSys from information provided by the key "mkey" and the mapping provided in LocToGloBaseMap. More...

void	ReadGlobalOptimizationParameters ()

virtual int	v_GetNumElmts (void)

virtual void	v_Upwind (const Array< OneD, const Array< OneD, NekDouble > > &Vec, const Array< OneD, const NekDouble > &Fwd, const Array< OneD, const NekDouble > &Bwd, Array< OneD, NekDouble > &Upwind)

virtual void	v_Upwind (const Array< OneD, const NekDouble > &Vn, const Array< OneD, const NekDouble > &Fwd, const Array< OneD, const NekDouble > &Bwd, Array< OneD, NekDouble > &Upwind)

virtual const Array< OneD, const int > &	v_GetTraceBndMap ()

virtual void	v_GetNormals (Array< OneD, Array< OneD, NekDouble > > &normals)

virtual void	v_AddTraceIntegral (const Array< OneD, const NekDouble > &Fx, const Array< OneD, const NekDouble > &Fy, Array< OneD, NekDouble > &outarray)

virtual void	v_MultiplyByInvMassMatrix (const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray, CoeffState coeffstate)

virtual void	v_LinearAdvectionDiffusionReactionSolve (const Array< OneD, Array< OneD, NekDouble > > &velocity, const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray, const NekDouble lambda, CoeffState coeffstate=eLocal, const Array< OneD, const NekDouble > &dirForcing=NullNekDouble1DArray)

virtual void	v_LinearAdvectionReactionSolve (const Array< OneD, Array< OneD, NekDouble > > &velocity, const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray, const NekDouble lambda, CoeffState coeffstate=eLocal, const Array< OneD, const NekDouble > &dirForcing=NullNekDouble1DArray)

virtual void	v_ImposeDirichletConditions (Array< OneD, NekDouble > &outarray)

virtual void	v_FillBndCondFromField ()

virtual void	v_FillBndCondFromField (const int nreg)

virtual void	v_LocalToGlobal (bool UseComm)

virtual void	v_LocalToGlobal (const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray, bool UseComm)

virtual void	v_GlobalToLocal (void)

virtual void	v_GlobalToLocal (const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray)

virtual void	v_BwdTrans (const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray, CoeffState coeffstate)

virtual void	v_BwdTrans_IterPerExp (const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray)

virtual void	v_FwdTrans (const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray, CoeffState coeffstate)

virtual void	v_FwdTrans_IterPerExp (const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray)

virtual void	v_SmoothField (Array< OneD, NekDouble > &field)

virtual void	v_IProductWRTBase (const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray, CoeffState coeffstate)

virtual void	v_IProductWRTBase_IterPerExp (const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray)

virtual void	v_GetCoords (Array< OneD, NekDouble > &coord_0, Array< OneD, NekDouble > &coord_1, Array< OneD, NekDouble > &coord_2=NullNekDouble1DArray)

virtual void	v_PhysDeriv (const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &out_d0, Array< OneD, NekDouble > &out_d1, Array< OneD, NekDouble > &out_d2)

virtual void	v_PhysDeriv (const int dir, const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &out_d)

virtual void	v_PhysDeriv (Direction edir, const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &out_d)

virtual void	v_CurlCurl (Array< OneD, Array< OneD, NekDouble > > &Vel, Array< OneD, Array< OneD, NekDouble > > &Q)

virtual void	v_HomogeneousFwdTrans (const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray, CoeffState coeffstate=eLocal, bool Shuff=true, bool UnShuff=true)

virtual void	v_HomogeneousBwdTrans (const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray, CoeffState coeffstate=eLocal, bool Shuff=true, bool UnShuff=true)

virtual void	v_DealiasedProd (const Array< OneD, NekDouble > &inarray1, const Array< OneD, NekDouble > &inarray2, Array< OneD, NekDouble > &outarray, CoeffState coeffstate=eLocal)

virtual void	v_DealiasedDotProd (const Array< OneD, Array< OneD, NekDouble > > &inarray1, const Array< OneD, Array< OneD, NekDouble > > &inarray2, Array< OneD, Array< OneD, NekDouble > > &outarray, CoeffState coeffstate=eLocal)

virtual void	v_GetBCValues (Array< OneD, NekDouble > &BndVals, const Array< OneD, NekDouble > &TotField, int BndID)

virtual void	v_NormVectorIProductWRTBase (Array< OneD, const NekDouble > &V1, Array< OneD, const NekDouble > &V2, Array< OneD, NekDouble > &outarray, int BndID)

virtual void	v_NormVectorIProductWRTBase (Array< OneD, Array< OneD, NekDouble > > &V, Array< OneD, NekDouble > &outarray)

virtual void	v_ExtractElmtToBndPhys (int i, Array< OneD, NekDouble > &elmt, Array< OneD, NekDouble > &boundary)

virtual void	v_ExtractPhysToBndElmt (int i, const Array< OneD, const NekDouble > &phys, Array< OneD, NekDouble > &bndElmt)

virtual void	v_ExtractPhysToBnd (int i, const Array< OneD, const NekDouble > &phys, Array< OneD, NekDouble > &bnd)

virtual void	v_GetBoundaryNormals (int i, Array< OneD, Array< OneD, NekDouble > > &normals)

virtual std::vector < LibUtilities::FieldDefinitionsSharedPtr >	v_GetFieldDefinitions (void)

virtual void	v_GetFieldDefinitions (std::vector< LibUtilities::FieldDefinitionsSharedPtr > &fielddef)

virtual void	v_AppendFieldData (LibUtilities::FieldDefinitionsSharedPtr &fielddef, std::vector< NekDouble > &fielddata)

virtual void	v_AppendFieldData (LibUtilities::FieldDefinitionsSharedPtr &fielddef, std::vector< NekDouble > &fielddata, Array< OneD, NekDouble > &coeffs)

virtual void	v_ExtractDataToCoeffs (LibUtilities::FieldDefinitionsSharedPtr &fielddef, std::vector< NekDouble > &fielddata, std::string &field, Array< OneD, NekDouble > &coeffs)
	Extract data from raw field data into expansion list. More...

virtual void	v_ExtractCoeffsToCoeffs (const boost::shared_ptr< ExpList > &fromExpList, const Array< OneD, const NekDouble > &fromCoeffs, Array< OneD, NekDouble > &toCoeffs)

virtual void	v_WriteTecplotHeader (std::ostream &outfile, std::string var="")

virtual void	v_WriteTecplotZone (std::ostream &outfile, int expansion)

virtual void	v_WriteTecplotField (std::ostream &outfile, int expansion)

virtual void	v_WriteTecplotConnectivity (std::ostream &outfile, int expansion)

virtual void	v_WriteVtkPieceData (std::ostream &outfile, int expansion, std::string var)

virtual NekDouble	v_L2 (const Array< OneD, const NekDouble > &phys, const Array< OneD, const NekDouble > &soln=NullNekDouble1DArray)

virtual NekDouble	v_Integral (const Array< OneD, const NekDouble > &inarray)

virtual Array< OneD, const NekDouble >	v_HomogeneousEnergy (void)

virtual LibUtilities::TranspositionSharedPtr	v_GetTransposition (void)

virtual NekDouble	v_GetHomoLen (void)

virtual Array< OneD, const unsigned int >	v_GetZIDs (void)

virtual Array< OneD, const unsigned int >	v_GetYIDs (void)

virtual void	v_ClearGlobalLinSysManager (void)

void	ExtractFileBCs (const std::string &fileName, LibUtilities::CommSharedPtr comm, const std::string &varName, const boost::shared_ptr< ExpList > locExpList)

Protected Attributes
Array< OneD, MultiRegions::ExpListSharedPtr >	m_bndCondExpansions
	An object which contains the discretised boundary conditions. More...

Array< OneD, SpatialDomains::BoundaryConditionShPtr >	m_bndConditions
	An array which contains the information about the boundary condition on the different boundary regions. More...

GlobalLinSysMapShPtr	m_globalBndMat

ExpListSharedPtr	m_trace

AssemblyMapDGSharedPtr	m_traceMap

LocTraceToTraceMapSharedPtr	m_locTraceToTraceMap
	Map of local trace (the points at the face of the element) to the trace space discretisation. More...

std::set< int >	m_boundaryFaces
	A set storing the global IDs of any boundary faces. More...

PeriodicMap	m_periodicFaces
	A map which identifies pairs of periodic faces. More...

PeriodicMap	m_periodicEdges
	A map which identifies groups of periodic edges. More...

PeriodicMap	m_periodicVerts
	A map which identifies groups of periodic vertices. More...

std::vector< bool >	m_leftAdjacentFaces

std::vector< int >	m_periodicFwdCopy
	A vector indicating degress of freedom which need to be copied from forwards to backwards space in case of a periodic boundary condition. More...

std::vector< int >	m_periodicBwdCopy

Protected Attributes inherited from Nektar::MultiRegions::ExpList
LibUtilities::CommSharedPtr	m_comm
	Communicator. More...

LibUtilities::SessionReaderSharedPtr	m_session
	Session. More...

SpatialDomains::MeshGraphSharedPtr	m_graph
	Mesh associated with this expansion list. More...

int	m_ncoeffs
	The total number of local degrees of freedom. m_ncoeffs $=N_{\mathrm{eof}}=\sum_{e=1}^{{N_{\mathrm{el}}}}N^{e}_l$ . More...

int	m_npoints

Array< OneD, NekDouble >	m_coeffs
	Concatenation of all local expansion coefficients. More...

Array< OneD, NekDouble >	m_phys
	The global expansion evaluated at the quadrature points. More...

bool	m_physState
	The state of the array m_phys. More...

boost::shared_ptr < LocalRegions::ExpansionVector >	m_exp
	The list of local expansions. More...

Collections::CollectionVector	m_collections

std::vector< int >	m_coll_coeff_offset
	Offset of elemental data into the array m_coeffs. More...

std::vector< int >	m_coll_phys_offset
	Offset of elemental data into the array m_phys. More...

Array< OneD, int >	m_coeff_offset
	Offset of elemental data into the array m_coeffs. More...

Array< OneD, int >	m_phys_offset
	Offset of elemental data into the array m_phys. More...

Array< OneD, int >	m_offset_elmt_id
	Array containing the element id m_offset_elmt_id[n] that the n^th consecutive block of data in m_coeffs and m_phys is associated, i.e. for an array of constant expansion size and single shape elements m_phys[n*m_npoints] is the data related to m_exp[m_offset_elmt_id[n]];. More...

NekOptimize::GlobalOptParamSharedPtr	m_globalOptParam

BlockMatrixMapShPtr	m_blockMat

bool	m_WaveSpace

boost::unordered_map< int, int >	m_elmtToExpId
	Mapping from geometry ID of element to index inside m_exp. More...

Additional Inherited Members
Static Protected Member Functions inherited from Nektar::MultiRegions::ExpList
static SpatialDomains::BoundaryConditionShPtr	GetBoundaryCondition (const SpatialDomains::BoundaryConditionCollection &collection, unsigned int index, const std::string &variable)

Detailed Description

Abstraction of a global discontinuous three-dimensional spectral/hp element expansion which approximates the solution of a set of partial differential equations.

Definition at line 55 of file DisContField3D.h.

Constructor & Destructor Documentation

Nektar::MultiRegions::DisContField3D::DisContField3D ( )

Default constructor.

Definition at line 66 of file DisContField3D.cpp.

                                         :
              ExpList3D             (),
              m_bndCondExpansions   (),
              m_bndConditions       (),
              m_trace(NullExpListSharedPtr)
          {
          }

Nektar::MultiRegions::DisContField3D::DisContField3D	(	const LibUtilities::SessionReaderSharedPtr &	pSession,
		const SpatialDomains::MeshGraphSharedPtr &	graph3D,
		const std::string &	variable,
		const bool	SetUpJustDG = `true`
	)

Constructs a global discontinuous field based on an input mesh with boundary conditions.

Definition at line 78 of file DisContField3D.cpp.

References Nektar::MultiRegions::ExpList::EvaluateBoundaryConditions(), FindPeriodicFaces(), GenerateBoundaryConditionExpansion(), Nektar::MultiRegions::ExpList::GetBoundaryToElmtMap(), m_bndCondExpansions, Nektar::MultiRegions::ExpList::m_session, and SetUpDG().

              : ExpList3D          (pSession, graph3D, variable),
                m_bndCondExpansions(),
                m_bndConditions    (),
                m_trace(NullExpListSharedPtr)
          {
              // do not set up BCs if default variable
              if (variable.compare("DefaultVar") != 0)
              {
                  SpatialDomains::BoundaryConditions bcs(m_session, graph3D);
                 
                  GenerateBoundaryConditionExpansion(graph3D,bcs,variable);
                  EvaluateBoundaryConditions(0.0, variable);
 
                  // Find periodic edges for this variable.
                  FindPeriodicFaces(bcs, variable);
              }
             
              if(SetUpJustDG)
              {
                  SetUpDG();
              }
              else
              {
                  // Set element edges to point to Robin BC edges if required.
                  int i, cnt, f;
                  Array<OneD, int> ElmtID, FaceID;
                  GetBoundaryToElmtMap(ElmtID, FaceID);
 
                  for(cnt = i = 0; i < m_bndCondExpansions.num_elements(); ++i)
                  {
                      MultiRegions::ExpListSharedPtr locExpList;
                      locExpList = m_bndCondExpansions[i];
 
                      for(f = 0; f < locExpList->GetExpSize(); ++f)
                      {
                          LocalRegions::Expansion3DSharedPtr exp3d
                             = (*m_exp)[ElmtID[cnt+f]]->
                                 as<LocalRegions::Expansion3D>();
                          LocalRegions::Expansion2DSharedPtr exp2d
                             = locExpList->GetExp(f)->
                                 as<LocalRegions::Expansion2D>();
 
                          exp3d->SetFaceExp(FaceID[cnt+f],exp2d);
                          exp2d->SetAdjacentElementExp(FaceID[cnt+f],exp3d);
                      }
                      cnt += m_bndCondExpansions[i]->GetExpSize();
                  }
              }
          }

Nektar::MultiRegions::DisContField3D::DisContField3D	(	const DisContField3D &	In,
		const SpatialDomains::MeshGraphSharedPtr &	graph3D,
		const std::string &	variable,
		const bool	SetUpJustDG = `false`
	)

Definition at line 137 of file DisContField3D.cpp.

References Nektar::MultiRegions::ExpList::ApplyGeomInfo(), Nektar::MultiRegions::ExpList::EvaluateBoundaryConditions(), FindPeriodicFaces(), GenerateBoundaryConditionExpansion(), Nektar::MultiRegions::ExpList::GetBoundaryToElmtMap(), m_bndCondExpansions, m_globalBndMat, m_locTraceToTraceMap, m_periodicEdges, m_periodicFaces, m_periodicVerts, Nektar::MultiRegions::ExpList::m_session, m_trace, m_traceMap, SameTypeOfBoundaryConditions(), SetUpDG(), and Nektar::MultiRegions::ExpList::SetUpPhysNormals().

              : ExpList3D(In), 
                m_trace(NullExpListSharedPtr)
          {
              SpatialDomains::BoundaryConditions bcs(m_session, graph3D);
 
              GenerateBoundaryConditionExpansion(graph3D,bcs,variable);
              EvaluateBoundaryConditions(0.0, variable);
              ApplyGeomInfo();
 
              if (!SameTypeOfBoundaryConditions(In))
              {
                  // Find periodic edges for this variable.
                  FindPeriodicFaces(bcs, variable);
 
                  if (SetUpJustDG)
                  {
                      SetUpDG(variable);
                  }
                  else
                  {
                      int i,cnt,f;
                      Array<OneD, int> ElmtID,FaceID;
                      GetBoundaryToElmtMap(ElmtID,FaceID);
 
                      for(cnt = i = 0; i < m_bndCondExpansions.num_elements(); ++i)
                      {
                          MultiRegions::ExpListSharedPtr locExpList;
                          locExpList = m_bndCondExpansions[i];
 
                          for(f = 0; f < locExpList->GetExpSize(); ++f)
                          {
                              LocalRegions::Expansion3DSharedPtr exp3d
                                  = (*m_exp)[ElmtID[cnt+f]]->
                                          as<LocalRegions::Expansion3D>();
                              LocalRegions::Expansion2DSharedPtr exp2d
                                  = locExpList->GetExp(f)->
                                          as<LocalRegions::Expansion2D>();
 
                              exp3d->SetFaceExp(FaceID[cnt+f],exp2d);
                              exp2d->SetAdjacentElementExp(FaceID[cnt+f],exp3d);
                          }
 
                          cnt += m_bndCondExpansions[i]->GetExpSize();
                      }
                      SetUpPhysNormals();
                  }
 
              }
              //else if we have the same boundary condition
              else
              {
                  m_globalBndMat       = In.m_globalBndMat;
                  m_trace              = In.m_trace;
                  m_traceMap           = In.m_traceMap;
                  m_locTraceToTraceMap = In.m_locTraceToTraceMap;
                  m_periodicVerts      = In.m_periodicVerts;
                  m_periodicEdges      = In.m_periodicEdges;
                  m_periodicFaces      = In.m_periodicFaces;
 
                  if(SetUpJustDG)
                  {
                  }
                  else 
                  {
                      int i,cnt,f;
                      Array<OneD, int> ElmtID,FaceID;
                      GetBoundaryToElmtMap(ElmtID,FaceID);
 
                      for (cnt = i = 0;
                           i < m_bndCondExpansions.num_elements(); ++i)
                      {
                          MultiRegions::ExpListSharedPtr locExpList;
                          locExpList = m_bndCondExpansions[i];
 
                          for(f = 0; f < locExpList->GetExpSize(); ++f)
                          {
                              LocalRegions::Expansion3DSharedPtr exp3d
                                  = (*m_exp)[ElmtID[cnt+f]]->
                                          as<LocalRegions::Expansion3D>();
                              LocalRegions::Expansion2DSharedPtr exp2d
                                  = locExpList->GetExp(f)->
                                          as<LocalRegions::Expansion2D>();
 
                              exp3d->SetFaceExp(FaceID[cnt+f], exp2d);
                              exp2d->SetAdjacentElementExp(FaceID[cnt+f], exp3d);
                          }
 
                          cnt += m_bndCondExpansions[i]->GetExpSize();
                      }
 
                      if (m_session->DefinesSolverInfo("PROJECTION"))
                      {
                          std::string ProjectStr = 
                              m_session->GetSolverInfo("PROJECTION");
                          if (ProjectStr == "MixedCGDG"           ||
                              ProjectStr == "Mixed_CG_Discontinuous")
                          {
                              SetUpDG(variable);
                          }
                          else
                          {
                              SetUpPhysNormals();
                          }
                      }
                      else
                      {
                          SetUpPhysNormals();
                      }                       
                  }
              }
          }

Nektar::MultiRegions::DisContField3D::DisContField3D ( const DisContField3D & In )

Constructs a global discontinuous field based on another discontinuous field.

Definition at line 257 of file DisContField3D.cpp.

                                                                 :
              ExpList3D(In),
              m_bndCondExpansions   (In.m_bndCondExpansions),
              m_bndConditions       (In.m_bndConditions),
              m_globalBndMat        (In.m_globalBndMat),
              m_trace               (In.m_trace),
              m_traceMap            (In.m_traceMap),
              m_locTraceToTraceMap  (In.m_locTraceToTraceMap),
              m_periodicFaces       (In.m_periodicFaces),
              m_periodicEdges       (In.m_periodicEdges),
              m_periodicVerts       (In.m_periodicVerts)
          {
          }

Nektar::MultiRegions::DisContField3D::~DisContField3D ( )

virtual

Destructor.

Definition at line 274 of file DisContField3D.cpp.

275 {

276 }

Member Function Documentation

void Nektar::MultiRegions::DisContField3D::EvaluateHDGPostProcessing ( Array< OneD, NekDouble > & outarray )

Evaluate HDG post-processing to increase polynomial order of solution.

This function takes the solution (assumed to be one order lower) in physical space, and postprocesses at the current polynomial order by solving the system:

$\begin{aligned} (\nabla w, \nabla u^*) &= (\nabla w, u), \\ \langle \nabla u^*, 1 \rangle &= \langle \nabla u, 1 \rangle \end{aligned}$

where $ u $ corresponds with the current solution as stored inside m_coeffs.

Parameters

outarray The resulting field .

Definition at line 2269 of file DisContField3D.cpp.

         {
             int    i,cnt,f,ncoeff_face;
             Array<OneD, NekDouble> force, out_tmp,qrhs,qrhs1;
             Array<OneD, Array< OneD, LocalRegions::ExpansionSharedPtr> > 
                 &elmtToTrace = m_traceMap->GetElmtToTrace();
 
             int     eid,nq_elmt, nm_elmt;
             int     LocBndCoeffs = m_traceMap->GetNumLocalBndCoeffs();
             Array<OneD, NekDouble> loc_lambda(LocBndCoeffs), face_lambda;
             Array<OneD, NekDouble> tmp_coeffs;
             m_traceMap->GlobalToLocalBnd(m_trace->GetCoeffs(),loc_lambda);
 
             face_lambda = loc_lambda;
 
             // Calculate Q using standard DG formulation.
             for(i = cnt = 0; i < GetExpSize(); ++i)
             {
                 LocalRegions::Expansion3DSharedPtr exp =
                         (*m_exp)[i]->as<LocalRegions::Expansion3D>();
 
                 eid     = m_offset_elmt_id[i];
                 nq_elmt = (*m_exp)[eid]->GetTotPoints();
                 nm_elmt = (*m_exp)[eid]->GetNcoeffs();
                 qrhs    = Array<OneD, NekDouble>(nq_elmt);
                 qrhs1   = Array<OneD, NekDouble>(nq_elmt);
                 force   = Array<OneD, NekDouble>(2*nm_elmt);
                 out_tmp = force + nm_elmt;
                 LocalRegions::ExpansionSharedPtr ppExp;
 
                 int num_points0 = (*m_exp)[eid]->GetBasis(0)->GetNumPoints();
                 int num_points1 = (*m_exp)[eid]->GetBasis(1)->GetNumPoints();
                 int num_points2 = (*m_exp)[eid]->GetBasis(2)->GetNumPoints();
                 int num_modes0 = (*m_exp)[eid]->GetBasis(0)->GetNumModes();
                 int num_modes1 = (*m_exp)[eid]->GetBasis(1)->GetNumModes();
                 int num_modes2 = (*m_exp)[eid]->GetBasis(2)->GetNumModes();
 
                 // Probably a better way of setting up lambda than this.  Note
                 // cannot use PutCoeffsInToElmts since lambda space is mapped
                 // during the solve.
                 int nFaces = (*m_exp)[eid]->GetNfaces();
                 Array<OneD, Array<OneD, NekDouble> > faceCoeffs(nFaces);
                 for(f = 0; f < nFaces; ++f)
                 {
                     ncoeff_face = elmtToTrace[eid][f]->GetNcoeffs();
                     faceCoeffs[f] = Array<OneD, NekDouble>(ncoeff_face);
                     Vmath::Vcopy(ncoeff_face, face_lambda, 1, faceCoeffs[f], 1);
                     exp->SetFaceToGeomOrientation(f, faceCoeffs[f]);
                     face_lambda = face_lambda + ncoeff_face;
                 }
 
                 //creating orthogonal expansion (checking if we have quads or triangles)
                 LibUtilities::ShapeType shape = (*m_exp)[eid]->DetShapeType();
                 switch(shape)
                 {
                     case LibUtilities::eHexahedron:
                     {
                         const LibUtilities::PointsKey PkeyH1(num_points0,LibUtilities::eGaussLobattoLegendre);
                         const LibUtilities::PointsKey PkeyH2(num_points1,LibUtilities::eGaussLobattoLegendre);
                         const LibUtilities::PointsKey PkeyH3(num_points2,LibUtilities::eGaussLobattoLegendre);
                         LibUtilities::BasisKey  BkeyH1(LibUtilities::eOrtho_A, num_modes0, PkeyH1);
                         LibUtilities::BasisKey  BkeyH2(LibUtilities::eOrtho_A, num_modes1, PkeyH2);
                         LibUtilities::BasisKey  BkeyH3(LibUtilities::eOrtho_A, num_modes2, PkeyH3);
                         SpatialDomains::HexGeomSharedPtr hGeom = boost::dynamic_pointer_cast<SpatialDomains::HexGeom>((*m_exp)[eid]->GetGeom());
                         ppExp = MemoryManager<LocalRegions::HexExp>::AllocateSharedPtr(BkeyH1, BkeyH2, BkeyH3, hGeom);
                     }
                     break;
                     case LibUtilities::eTetrahedron:
                     {
                         const LibUtilities::PointsKey PkeyT1(num_points0,LibUtilities::eGaussLobattoLegendre);
                         const LibUtilities::PointsKey PkeyT2(num_points1,LibUtilities::eGaussRadauMAlpha1Beta0);
                         const LibUtilities::PointsKey PkeyT3(num_points2,LibUtilities::eGaussRadauMAlpha2Beta0);
                         LibUtilities::BasisKey  BkeyT1(LibUtilities::eOrtho_A, num_modes0, PkeyT1);
                         LibUtilities::BasisKey  BkeyT2(LibUtilities::eOrtho_B, num_modes1, PkeyT2);
                         LibUtilities::BasisKey  BkeyT3(LibUtilities::eOrtho_C, num_modes2, PkeyT3);
                         SpatialDomains::TetGeomSharedPtr tGeom = boost::dynamic_pointer_cast<SpatialDomains::TetGeom>((*m_exp)[eid]->GetGeom());
                         ppExp = MemoryManager<LocalRegions::TetExp>::AllocateSharedPtr(BkeyT1, BkeyT2, BkeyT3, tGeom);
                     }
                     break;
                     case LibUtilities::ePrism:
                     {
                         const LibUtilities::PointsKey PkeyP1(num_points0,LibUtilities::eGaussLobattoLegendre);
                         const LibUtilities::PointsKey PkeyP2(num_points1,LibUtilities::eGaussLobattoLegendre);
                         const LibUtilities::PointsKey PkeyP3(num_points2,LibUtilities::eGaussRadauMAlpha1Beta0);
                         LibUtilities::BasisKey  BkeyP1(LibUtilities::eOrtho_A, num_modes0, PkeyP1);
                         LibUtilities::BasisKey  BkeyP2(LibUtilities::eOrtho_A, num_modes1, PkeyP2);
                         LibUtilities::BasisKey  BkeyP3(LibUtilities::eOrtho_B, num_modes2, PkeyP3);
                         SpatialDomains::PrismGeomSharedPtr pGeom = boost::dynamic_pointer_cast<SpatialDomains::PrismGeom>((*m_exp)[eid]->GetGeom());
                         ppExp = MemoryManager<LocalRegions::PrismExp>::AllocateSharedPtr(BkeyP1, BkeyP2, BkeyP3, pGeom);
                     }
                     break;
                     default:
                         ASSERTL0(false, "Wrong shape type, HDG postprocessing is not implemented");
                 };
 
 
                 //DGDeriv   
                 // (d/dx w, q_0)
                 (*m_exp)[eid]->DGDeriv(
                     0,tmp_coeffs = m_coeffs + m_coeff_offset[eid],
                     elmtToTrace[eid], faceCoeffs, out_tmp);
                 (*m_exp)[eid]->BwdTrans(out_tmp,qrhs);
                 ppExp->IProductWRTDerivBase(0,qrhs,force);
 
 
                 // + (d/dy w, q_1)
                 (*m_exp)[eid]->DGDeriv(
                     1,tmp_coeffs = m_coeffs + m_coeff_offset[eid],
                     elmtToTrace[eid], faceCoeffs, out_tmp);
                 (*m_exp)[eid]->BwdTrans(out_tmp,qrhs);
                 ppExp->IProductWRTDerivBase(1,qrhs,out_tmp);
 
                 Vmath::Vadd(nm_elmt,force,1,out_tmp,1,force,1);
 
                 // + (d/dz w, q_2)
                 (*m_exp)[eid]->DGDeriv(
                     2,tmp_coeffs = m_coeffs + m_coeff_offset[eid],
                     elmtToTrace[eid], faceCoeffs, out_tmp);
                 (*m_exp)[eid]->BwdTrans(out_tmp,qrhs);
                 ppExp->IProductWRTDerivBase(2,qrhs,out_tmp);
 
                 Vmath::Vadd(nm_elmt,force,1,out_tmp,1,force,1);
                 // determine force[0] = (1,u)
                 (*m_exp)[eid]->BwdTrans(
                     tmp_coeffs = m_coeffs + m_coeff_offset[eid],qrhs);
                 force[0] = (*m_exp)[eid]->Integral(qrhs);
 
                 // multiply by inverse Laplacian matrix
                 // get matrix inverse
                 LocalRegions::MatrixKey  lapkey(StdRegions::eInvLaplacianWithUnityMean, ppExp->DetShapeType(), *ppExp);
                 DNekScalMatSharedPtr lapsys = ppExp->GetLocMatrix(lapkey); 
 
                 NekVector<NekDouble> in (nm_elmt, force, eWrapper);
                 NekVector<NekDouble> out(nm_elmt);
 
                 out = (*lapsys)*in;
 
                 // Transforming back to modified basis
                 Array<OneD, NekDouble> work(nq_elmt);
                 ppExp->BwdTrans(out.GetPtr(), work);
                 (*m_exp)[eid]->FwdTrans(work,
                                 tmp_coeffs = outarray + m_coeff_offset[eid]);
             }
         }

void Nektar::MultiRegions::DisContField3D::FindPeriodicFaces	(	const SpatialDomains::BoundaryConditions &	bcs,
		const std::string &	variable
	)

protected

Determine the periodic faces, edges and vertices for the given graph.

Parameters

bcs	Information about the boundary conditions.
variable	Specifies the field.

Definition at line 673 of file DisContField3D.cpp.

Referenced by DisContField3D().

         {
             const SpatialDomains::BoundaryRegionCollection &bregions
                 = bcs.GetBoundaryRegions();
             const SpatialDomains::BoundaryConditionCollection &bconditions
                 = bcs.GetBoundaryConditions();
             SpatialDomains::MeshGraph3DSharedPtr graph3D
                 = boost::dynamic_pointer_cast<
                     SpatialDomains::MeshGraph3D>(m_graph);
             SpatialDomains::BoundaryRegionCollection::const_iterator it;
 
             LibUtilities::CommSharedPtr     vComm       =
                 m_session->GetComm()->GetRowComm();
             LibUtilities::CompositeOrdering compOrder   =
                 m_session->GetCompositeOrdering();
             LibUtilities::BndRegionOrdering bndRegOrder =
                 m_session->GetBndRegionOrdering();
             SpatialDomains::CompositeMap    compMap     =
                 m_graph->GetComposites();
 
             // perComps: Stores a unique collection of pairs of periodic
             // composites (i.e. if composites 1 and 2 are periodic then this map
             // will contain either the pair (1,2) or (2,1) but not both).
             //
             // The four maps allVerts, allCoord, allEdges and allOrient map a
             // periodic face to a vector containing the vertex ids of the face;
             // their coordinates; the edge ids of the face; and their
             // orientation within that face respectively.
             //
             // Finally the three sets locVerts, locEdges and locFaces store any
             // vertices, edges and faces that belong to a periodic composite and
             // lie on this process.
             map<int,int>                                   perComps;
             map<int,vector<int> >                          allVerts;
             map<int,SpatialDomains::PointGeomVector>       allCoord;
             map<int,vector<int> >                          allEdges;
             map<int,vector<StdRegions::Orientation> >      allOrient;
             set<int>                                       locVerts;
             set<int>                                       locEdges;
             set<int>                                       locFaces;
 
             int region1ID, region2ID, i, j, k, cnt;
             SpatialDomains::BoundaryConditionShPtr locBCond;
 
             // Set up a set of all local verts and edges. 
             for(i = 0; i < (*m_exp).size(); ++i)
             {
                 for(j = 0; j < (*m_exp)[i]->GetNverts(); ++j)
                 {
                     int id = (*m_exp)[i]->GetGeom()->GetVid(j);
                     locVerts.insert(id);
                 }
 
                 for(j = 0; j < (*m_exp)[i]->GetNedges(); ++j)
                 {
                     int id = (*m_exp)[i]->GetGeom()->GetEid(j);
                     locEdges.insert(id);
                 }
             }    
 
             // Begin by populating the perComps map. We loop over all periodic
             // boundary conditions and determine the composite associated with
             // it, then fill out the all* maps.
             for (it = bregions.begin(); it != bregions.end(); ++it)
             {
                 locBCond = GetBoundaryCondition(
                     bconditions, it->first, variable);
 
                 if (locBCond->GetBoundaryConditionType()
                         != SpatialDomains::ePeriodic)
                 {
                     continue;
                 }
 
                 // Identify periodic boundary region IDs.
                 region1ID = it->first;
                 region2ID = boost::static_pointer_cast<
                     SpatialDomains::PeriodicBoundaryCondition>(
                         locBCond)->m_connectedBoundaryRegion;
 
                 // Check the region only contains a single composite.
                 ASSERTL0(it->second->size() == 1,
                          "Boundary region "+boost::lexical_cast<string>(
                              region1ID)+" should only contain 1 composite.");
 
                 // From this identify composites by looking at the original
                 // boundary region ordering. Note that in serial the mesh
                 // partitioner is not run, so this map will be empty and
                 // therefore needs to be populated by using the corresponding
                 // boundary region.
                 int cId1, cId2;
                 if (vComm->GetSize() == 1)
                 {
                     cId1 = it->second->begin()->first;
                     cId2 = bregions.find(region2ID)->second->begin()->first;
                 }
                 else
                 {
                     cId1 = bndRegOrder.find(region1ID)->second[0];
                     cId2 = bndRegOrder.find(region2ID)->second[0];
                 }
 
                 SpatialDomains::Composite c = it->second->begin()->second;
                 vector<unsigned int> tmpOrder;
                 
                 // From the composite, we now construct the allVerts, allEdges
                 // and allCoord map so that they can be transferred across
                 // processors. We also populate the locFaces set to store a
                 // record of all faces local to this process.
                 for (i = 0; i < c->size(); ++i)
                 {
                     SpatialDomains::Geometry2DSharedPtr faceGeom =
                         boost::dynamic_pointer_cast<
                             SpatialDomains::Geometry2D>((*c)[i]);
                     ASSERTL1(faceGeom, "Unable to cast to shared ptr");
 
                     // Get geometry ID of this face and store in locFaces.
                     int faceId = (*c)[i]->GetGlobalID();
                     locFaces.insert(faceId);
 
                     // In serial, mesh partitioning will not have occurred so
                     // need to fill composite ordering map manually.
                     if (vComm->GetSize() == 1)
                     {
                         tmpOrder.push_back((*c)[i]->GetGlobalID());
                     }
 
                     // Loop over vertices and edges of the face to populate
                     // allVerts, allEdges and allCoord maps.
                     vector<int> vertList, edgeList;
                     SpatialDomains::PointGeomVector coordVec;
                     vector<StdRegions::Orientation> orientVec;
                     for (j = 0; j < faceGeom->GetNumVerts(); ++j)
                     {
                         vertList .push_back(faceGeom->GetVid   (j));
                         edgeList .push_back(faceGeom->GetEid   (j));
                         coordVec .push_back(faceGeom->GetVertex(j));
                         orientVec.push_back(faceGeom->GetEorient(j));
                     }
 
                     allVerts [faceId] = vertList;
                     allEdges [faceId] = edgeList;
                     allCoord [faceId] = coordVec;
                     allOrient[faceId] = orientVec;
                 }
 
                 // In serial, record the composite ordering in compOrder for
                 // later in the routine.
                 if (vComm->GetSize() == 1)
                 {
                     compOrder[it->second->begin()->first] = tmpOrder;
                 }
 
                 // See if we already have either region1 or region2 stored in
                 // perComps map already and do a sanity check to ensure regions
                 // are mutually periodic.
                 if (perComps.count(cId1) == 0)
                 {
                     if (perComps.count(cId2) == 0)
                     {
                         perComps[cId1] = cId2;
                     }
                     else
                     {
                         std::stringstream ss;
                         ss << "Boundary region " << cId2 << " should be "
                            << "periodic with " << perComps[cId2] << " but "
                            << "found " << cId1 << " instead!";
                         ASSERTL0(perComps[cId2] == cId1, ss.str());
                     }
                 }
                 else
                 {
                     std::stringstream ss;
                     ss << "Boundary region " << cId1 << " should be "
                        << "periodic with " << perComps[cId1] << " but "
                        << "found " << cId2 << " instead!";
                     ASSERTL0(perComps[cId1] == cId1, ss.str());
                 }
             }
 
             // The next routines process local face lists to exchange vertices,
             // edges and faces.
             int              n = vComm->GetSize();
             int              p = vComm->GetRank();
             int              totFaces;
             Array<OneD, int> facecounts(n,0);
             Array<OneD, int> vertcounts(n,0);
             Array<OneD, int> faceoffset(n,0);
             Array<OneD, int> vertoffset(n,0);
 
             // First exchange the number of faces on each process.
             facecounts[p] = locFaces.size();
             vComm->AllReduce(facecounts, LibUtilities::ReduceSum);
 
             // Set up an offset map to allow us to distribute face IDs to all
             // processors.
             faceoffset[0] = 0;
             for (i = 1; i < n; ++i)
             {
                 faceoffset[i] = faceoffset[i-1] + facecounts[i-1];
             }
 
             // Calculate total number of faces.
             totFaces = Vmath::Vsum(n, facecounts, 1);
 
             // faceIds holds face IDs for each periodic face. faceVerts holds
             // the number of vertices in this face.
             Array<OneD, int> faceIds  (totFaces, 0);
             Array<OneD, int> faceVerts(totFaces, 0);
 
             // Process p writes IDs of its faces into position faceoffset[p] of
             // faceIds which allows us to perform an AllReduce to distribute
             // information amongst processors.
             set<int>::iterator sIt;
             for (i = 0, sIt = locFaces.begin(); sIt != locFaces.end(); ++sIt)
             {
                 faceIds  [faceoffset[p] + i  ] = *sIt;
                 faceVerts[faceoffset[p] + i++] = allVerts[*sIt].size();
             }
 
             vComm->AllReduce(faceIds,   LibUtilities::ReduceSum);
             vComm->AllReduce(faceVerts, LibUtilities::ReduceSum);
 
             // procVerts holds number of vertices (and also edges since each
             // face is 2D) on each process.
             Array<OneD, int> procVerts(n,0);
             int nTotVerts;
 
             // Note if there are no periodic faces at all calling Vsum will
             // cause a segfault.
             if (totFaces > 0)
             {
                 // Calculate number of vertices on each processor.
                 nTotVerts = Vmath::Vsum(totFaces, faceVerts, 1);
             }
             else
             {
                 nTotVerts = 0;
             }
 
             for (i = 0; i < n; ++i)
             {
                 if (facecounts[i] > 0)
                 {
                     procVerts[i] = Vmath::Vsum(
                         facecounts[i], faceVerts + faceoffset[i], 1);
                 }
                 else
                 {
                     procVerts[i] = 0;
                 }
             }
 
             // vertoffset is defined in the same manner as edgeoffset
             // beforehand.
             vertoffset[0] = 0;
             for (i = 1; i < n; ++i)
             {
                 vertoffset[i] = vertoffset[i-1] + procVerts[i-1];
             }
 
             // At this point we exchange all vertex IDs, edge IDs and vertex
             // coordinates for each face. The coordinates are necessary because
             // we need to calculate relative face orientations between periodic
             // faces to determined edge and vertex connectivity.
             Array<OneD, int>       vertIds(nTotVerts,   0);
             Array<OneD, int>       edgeIds(nTotVerts,   0);
             Array<OneD, int>       edgeOrt(nTotVerts,   0);
             Array<OneD, NekDouble> vertX  (nTotVerts, 0.0);
             Array<OneD, NekDouble> vertY  (nTotVerts, 0.0);
             Array<OneD, NekDouble> vertZ  (nTotVerts, 0.0);
 
             for (cnt = 0, sIt = locFaces.begin();
                  sIt != locFaces.end(); ++sIt)
             {
                 for (j = 0; j < allVerts[*sIt].size(); ++j)
                 {
                     int vertId = allVerts[*sIt][j];
                     vertIds[vertoffset[p] + cnt  ] = vertId;
                     vertX  [vertoffset[p] + cnt  ] = (*allCoord[*sIt][j])(0);
                     vertY  [vertoffset[p] + cnt  ] = (*allCoord[*sIt][j])(1);
                     vertZ  [vertoffset[p] + cnt  ] = (*allCoord[*sIt][j])(2);
                     edgeIds[vertoffset[p] + cnt  ] = allEdges [*sIt][j];
                     edgeOrt[vertoffset[p] + cnt++] = allOrient[*sIt][j];
                 }
             }
 
             vComm->AllReduce(vertIds, LibUtilities::ReduceSum);
             vComm->AllReduce(vertX,   LibUtilities::ReduceSum);
             vComm->AllReduce(vertY,   LibUtilities::ReduceSum);
             vComm->AllReduce(vertZ,   LibUtilities::ReduceSum);
             vComm->AllReduce(edgeIds, LibUtilities::ReduceSum);
             vComm->AllReduce(edgeOrt, LibUtilities::ReduceSum);
 
             // Finally now we have all of this information, we construct maps
             // which make accessing the information easier. These are
             // conceptually the same as all* maps at the beginning of the
             // routine, but now hold information for all periodic vertices.
             map<int, vector<int> >                          vertMap;
             map<int, vector<int> >                          edgeMap;
             map<int, SpatialDomains::PointGeomVector>       coordMap;
 
             // These final two maps are required for determining the relative
             // orientation of periodic edges. vCoMap associates vertex IDs with
             // their coordinates, and eIdMap maps an edge ID to the two vertices
             // which construct it.
             map<int, SpatialDomains::PointGeomSharedPtr>    vCoMap;
             map<int, pair<int, int> >                       eIdMap;
 
             for (cnt = i = 0; i < totFaces; ++i)
             {
                 vector<int> edges(faceVerts[i]);
                 vector<int> verts(faceVerts[i]);
                 SpatialDomains::PointGeomVector coord(faceVerts[i]);
 
                 // Keep track of cnt to enable correct edge vertices to be
                 // inserted into eIdMap.
                 int tmp = cnt;
                 for (j = 0; j < faceVerts[i]; ++j, ++cnt)
                 {
                     edges[j] = edgeIds[cnt];
                     verts[j] = vertIds[cnt];
                     coord[j]  = MemoryManager<SpatialDomains::PointGeom>
                         ::AllocateSharedPtr(
                             3, verts[j], vertX[cnt], vertY[cnt], vertZ[cnt]);
                     vCoMap[vertIds[cnt]] = coord[j];
                     
                     // Try to insert edge into the eIdMap to avoid re-inserting.
                     pair<map<int, pair<int, int> >::iterator, bool> testIns =
                         eIdMap.insert(make_pair(
                             edgeIds[cnt],
                             make_pair(vertIds[tmp+j],
                                       vertIds[tmp+((j+1) % faceVerts[i])])));
 
                     if (testIns.second == false)
                     {
                         continue;
                     }
 
                     // If the edge is reversed with respect to the face, then
                     // swap the edges so that we have the original ordering of
                     // the edge in the 3D element. This is necessary to properly
                     // determine edge orientation.
                     if ((StdRegions::Orientation)edgeOrt[cnt]
                             == StdRegions::eBackwards)
                     {
                         swap(testIns.first->second.first,
                              testIns.first->second.second);
                     }
                 }
 
                 vertMap [faceIds[i]] = verts;
                 edgeMap [faceIds[i]] = edges;
                 coordMap[faceIds[i]] = coord;
             }
 
             // Go through list of composites and figure out which edges are
             // parallel from original ordering in session file. This includes
             // composites which are not necessarily on this process.
             map<int,int>::iterator cIt, pIt;
             map<int,int>::const_iterator oIt;
 
             // Store temporary map of periodic vertices which will hold all
             // periodic vertices on the entire mesh so that doubly periodic
             // vertices/edges can be counted properly across partitions. Local
             // vertices/edges are copied into m_periodicVerts and
             // m_periodicEdges at the end of the function.
             PeriodicMap periodicVerts;
             PeriodicMap periodicEdges;
 
             // Construct two maps which determine how vertices and edges of
             // faces connect given a specific face orientation. The key of the
             // map is the number of vertices in the face, used to determine
             // difference between tris and quads.
             map<int, map<StdRegions::Orientation, vector<int> > > vmap;
             map<int, map<StdRegions::Orientation, vector<int> > > emap;
 
             map<StdRegions::Orientation, vector<int> > quadVertMap;
             quadVertMap[StdRegions::eDir1FwdDir1_Dir2FwdDir2] += 0,1,2,3;
             quadVertMap[StdRegions::eDir1FwdDir1_Dir2BwdDir2] += 3,2,1,0;
             quadVertMap[StdRegions::eDir1BwdDir1_Dir2FwdDir2] += 1,0,3,2;
             quadVertMap[StdRegions::eDir1BwdDir1_Dir2BwdDir2] += 2,3,0,1;
             quadVertMap[StdRegions::eDir1FwdDir2_Dir2FwdDir1] += 0,3,2,1;
             quadVertMap[StdRegions::eDir1FwdDir2_Dir2BwdDir1] += 1,2,3,0;
             quadVertMap[StdRegions::eDir1BwdDir2_Dir2FwdDir1] += 3,0,1,2;
             quadVertMap[StdRegions::eDir1BwdDir2_Dir2BwdDir1] += 2,1,0,3;
 
             map<StdRegions::Orientation, vector<int> > quadEdgeMap;
             quadEdgeMap[StdRegions::eDir1FwdDir1_Dir2FwdDir2] += 0,1,2,3;
             quadEdgeMap[StdRegions::eDir1FwdDir1_Dir2BwdDir2] += 2,1,0,3;
             quadEdgeMap[StdRegions::eDir1BwdDir1_Dir2FwdDir2] += 0,3,2,1;
             quadEdgeMap[StdRegions::eDir1BwdDir1_Dir2BwdDir2] += 2,3,0,1;
             quadEdgeMap[StdRegions::eDir1FwdDir2_Dir2FwdDir1] += 3,2,1,0;
             quadEdgeMap[StdRegions::eDir1FwdDir2_Dir2BwdDir1] += 1,2,3,0;
             quadEdgeMap[StdRegions::eDir1BwdDir2_Dir2FwdDir1] += 3,0,1,2;
             quadEdgeMap[StdRegions::eDir1BwdDir2_Dir2BwdDir1] += 1,0,3,2;
 
             map<StdRegions::Orientation, vector<int> > triVertMap;
             triVertMap[StdRegions::eDir1FwdDir1_Dir2FwdDir2] += 0,1,2;
             triVertMap[StdRegions::eDir1BwdDir1_Dir2FwdDir2] += 1,0,2;
 
             map<StdRegions::Orientation, vector<int> > triEdgeMap;
             triEdgeMap[StdRegions::eDir1FwdDir1_Dir2FwdDir2] += 0,1,2;
             triEdgeMap[StdRegions::eDir1BwdDir1_Dir2FwdDir2] += 0,2,1;
 
             vmap[3] = triVertMap;
             vmap[4] = quadVertMap;
             emap[3] = triEdgeMap;
             emap[4] = quadEdgeMap;
 
             map<int,int> allCompPairs;
             
             // Finally we have enough information to populate the periodic
             // vertex, edge and face maps. Begin by looping over all pairs of
             // periodic composites to determine pairs of periodic faces.
             for (cIt = perComps.begin(); cIt != perComps.end(); ++cIt)
             {
                 SpatialDomains::Composite c[2];
                 const int   id1  = cIt->first;
                 const int   id2  = cIt->second;
                 std::string id1s = boost::lexical_cast<string>(id1);
                 std::string id2s = boost::lexical_cast<string>(id2);
 
                 if (compMap.count(id1) > 0)
                 {
                     c[0] = compMap[id1];
                 }
 
                 if (compMap.count(id2) > 0)
                 {
                     c[1] = compMap[id2];
                 }
 
                 ASSERTL0(c[0] || c[1],
                          "Neither composite not found on this process!");
 
                 // Loop over composite ordering to construct list of all
                 // periodic faces, regardless of whether they are on this
                 // process.
                 map<int,int> compPairs;
 
                 ASSERTL0(compOrder.count(id1) > 0,
                          "Unable to find composite "+id1s+" in order map.");
                 ASSERTL0(compOrder.count(id2) > 0,
                          "Unable to find composite "+id2s+" in order map.");
                 ASSERTL0(compOrder[id1].size() == compOrder[id2].size(),
                          "Periodic composites "+id1s+" and "+id2s+
                          " should have the same number of elements.");
                 ASSERTL0(compOrder[id1].size() > 0,
                          "Periodic composites "+id1s+" and "+id2s+
                          " are empty!");
 
                 // Look up composite ordering to determine pairs.
                 for (i = 0; i < compOrder[id1].size(); ++i)
                 {
                     int eId1 = compOrder[id1][i];
                     int eId2 = compOrder[id2][i];
 
                     ASSERTL0(compPairs.count(eId1) == 0,
                              "Already paired.");
 
                     // Sanity check that the faces are mutually periodic.
                     if (compPairs.count(eId2) != 0)
                     {
                         ASSERTL0(compPairs[eId2] == eId1, "Pairing incorrect");
                     }
                     compPairs[eId1] = eId2;
                 }
 
                 // Now that we have all pairs of periodic faces, loop over the
                 // ones local to this process and populate face/edge/vertex
                 // maps.
                 for (pIt = compPairs.begin(); pIt != compPairs.end(); ++pIt)
                 {
                     int  ids  [2] = {pIt->first, pIt->second};
                     bool local[2] = {locFaces.count(pIt->first) > 0,
                                      locFaces.count(pIt->second) > 0};
 
                     ASSERTL0(coordMap.count(ids[0]) > 0 &&
                              coordMap.count(ids[1]) > 0,
                              "Unable to find face in coordinate map");
 
                     allCompPairs[pIt->first ] = pIt->second;
                     allCompPairs[pIt->second] = pIt->first;
 
                     // Loop up coordinates of the faces, check they have the
                     // same number of vertices.
                     SpatialDomains::PointGeomVector tmpVec[2]
                         = { coordMap[ids[0]], coordMap[ids[1]] };
 
                     ASSERTL0(tmpVec[0].size() == tmpVec[1].size(),
                              "Two periodic faces have different number "
                              "of vertices!");
 
                     // o will store relative orientation of faces. Note that in
                     // some transpose cases (Dir1FwdDir2_Dir2BwdDir1 and
                     // Dir1BwdDir1_Dir2FwdDir1) it seems orientation will be
                     // different going from face1->face2 instead of face2->face1
                     // (check this).
                     StdRegions::Orientation o;
 
                     // Record periodic faces.
                     for (i = 0; i < 2; ++i)
                     {
                         if (!local[i])
                         {
                             continue;
                         }
 
                         // Reference to the other face.
                         int other = (i+1) % 2;
 
                         // Calculate relative face orientation.
                         if (tmpVec[0].size() == 3)
                         {
                             o = SpatialDomains::TriGeom::GetFaceOrientation(
                                 tmpVec[i], tmpVec[other]);
                         }
                         else
                         {
                             o = SpatialDomains::QuadGeom::GetFaceOrientation(
                                 tmpVec[i], tmpVec[other]);
                         }
 
                         // Record face ID, orientation and whether other face is
                         // local.
                         PeriodicEntity ent(ids  [other], o,
                                            local[other]);
                         m_periodicFaces[ids[i]].push_back(ent);
                     }
 
                     int nFaceVerts = vertMap[ids[0]].size();
 
                     // Determine periodic vertices.
                     for (i = 0; i < 2; ++i)
                     {
                         int other = (i+1) % 2;
 
                         // Calculate relative face orientation.
                         if (tmpVec[0].size() == 3)
                         {
                             o = SpatialDomains::TriGeom::GetFaceOrientation(
                                 tmpVec[i], tmpVec[other]);
                         }
                         else
                         {
                             o = SpatialDomains::QuadGeom::GetFaceOrientation(
                                 tmpVec[i], tmpVec[other]);
                         }
 
                         if (nFaceVerts == 3)
                         {
                             ASSERTL0(
                                 o == StdRegions::eDir1FwdDir1_Dir2FwdDir2 ||
                                 o == StdRegions::eDir1BwdDir1_Dir2FwdDir2,
                                 "Unsupported face orientation for face "+
                                 boost::lexical_cast<string>(ids[i]));
                         }
 
                         // Look up vertices for this face.
                         vector<int> per1 = vertMap[ids[i]];
                         vector<int> per2 = vertMap[ids[other]];
 
                         // tmpMap will hold the pairs of vertices which are
                         // periodic.
                         map<int, pair<int, bool> > tmpMap;
                         map<int, pair<int, bool> >::iterator mIt;
 
                         // Use vmap to determine which vertices connect given
                         // the orientation o.
                         for (j = 0; j < nFaceVerts; ++j)
                         {
                             int v = vmap[nFaceVerts][o][j];
                             tmpMap[per1[j]] = make_pair(
                                 per2[v], locVerts.count(per2[v]) > 0);
                         }
 
                         // Now loop over tmpMap to associate periodic vertices.
                         for (mIt = tmpMap.begin(); mIt != tmpMap.end(); ++mIt)
                         {
                             PeriodicEntity ent2(mIt->second.first,
                                                 StdRegions::eNoOrientation,
                                                 mIt->second.second);
 
                             // See if this vertex has been recorded already.
                             PeriodicMap::iterator perIt = periodicVerts.find(
                                 mIt->first);
 
                             if (perIt == periodicVerts.end())
                             {
                                 // Vertex is new - just record this entity as
                                 // usual.
                                 periodicVerts[mIt->first].push_back(ent2);
                                 perIt = periodicVerts.find(mIt->first);
                             }
                             else
                             {
                                 // Vertex is known - loop over the vertices
                                 // inside the record and potentially add vertex
                                 // mIt->second to the list.
                                 for (k = 0; k < perIt->second.size(); ++k)
                                 {
                                     if (perIt->second[k].id == mIt->second.first)
                                     {
                                         break;
                                     }
                                 }
 
                                 if (k == perIt->second.size())
                                 {
                                     perIt->second.push_back(ent2);
                                 }
                             }
                         }
                     }
 
                     // Determine periodic edges. Logic is the same as above,
                     // and perhaps should be condensed to avoid replication.
                     for (i = 0; i < 2; ++i)
                     {
                         int other = (i+1) % 2;
 
                         if (tmpVec[0].size() == 3)
                         {
                             o = SpatialDomains::TriGeom::GetFaceOrientation(
                                 tmpVec[i], tmpVec[other]);
                         }
                         else
                         {
                             o = SpatialDomains::QuadGeom::GetFaceOrientation(
                                 tmpVec[i], tmpVec[other]);
                         }
 
                         vector<int> per1 = edgeMap[ids[i]];
                         vector<int> per2 = edgeMap[ids[other]];
 
                         map<int, pair<int, bool> >           tmpMap;
                         map<int, pair<int, bool> >::iterator mIt;
 
                         for (j = 0; j < nFaceVerts; ++j)
                         {
                             int e = emap[nFaceVerts][o][j];
                             tmpMap[per1[j]] = make_pair(
                                 per2[e], locEdges.count(per2[e]) > 0);
                         }
 
                         for (mIt = tmpMap.begin(); mIt != tmpMap.end(); ++mIt)
                         {
                             // Note we assume orientation of edges is forwards -
                             // this may be reversed later.
                             PeriodicEntity ent2(mIt->second.first,
                                                 StdRegions::eForwards,
                                                 mIt->second.second);
                             PeriodicMap::iterator perIt = periodicEdges.find(
                                 mIt->first);
 
                             if (perIt == periodicEdges.end())
                             {
                                 periodicEdges[mIt->first].push_back(ent2);
                                 perIt = periodicEdges.find(mIt->first);
                             }
                             else
                             {
                                 for (k = 0; k < perIt->second.size(); ++k)
                                 {
                                     if (perIt->second[k].id == mIt->second.first)
                                     {
                                         break;
                                     }
                                 }
 
                                 if (k == perIt->second.size())
                                 {
                                     perIt->second.push_back(ent2);
                                 }
                             }
                         }
                     }
                 }
             }
 
             Array<OneD, int> pairSizes(n, 0);
             pairSizes[p] = allCompPairs.size();
             vComm->AllReduce(pairSizes, LibUtilities::ReduceSum);
 
             int totPairSizes = Vmath::Vsum(n, pairSizes, 1);
 
             Array<OneD, int> pairOffsets(n, 0);
             pairOffsets[0] = 0;
 
             for (i = 1; i < n; ++i)
             {
                 pairOffsets[i] = pairOffsets[i-1] + pairSizes[i-1];
             }
 
             Array<OneD, int> first (totPairSizes, 0);
             Array<OneD, int> second(totPairSizes, 0);
 
             cnt = pairOffsets[p];
 
             for (pIt = allCompPairs.begin(); pIt != allCompPairs.end(); ++pIt)
             {
                 first [cnt  ] = pIt->first;
                 second[cnt++] = pIt->second;
             }
 
             vComm->AllReduce(first,  LibUtilities::ReduceSum);
             vComm->AllReduce(second, LibUtilities::ReduceSum);
 
             allCompPairs.clear();
 
             for(cnt = 0; cnt < totPairSizes; ++cnt)
             {
                 allCompPairs[first[cnt]] = second[cnt];
             }
 
             // Search for periodic vertices and edges which are not
             // in a periodic composite but lie in this process. First,
             // loop over all information we have from other
             // processors.
             for (cnt = i = 0; i < totFaces; ++i)
             {
                 int faceId    = faceIds[i];
 
                 ASSERTL0(allCompPairs.count(faceId) > 0,
                          "Unable to find matching periodic face.");
 
                 int perFaceId = allCompPairs[faceId];
 
                 for (j = 0; j < faceVerts[i]; ++j, ++cnt)
                 {
                     int vId = vertIds[cnt];
 
                     PeriodicMap::iterator perId = periodicVerts.find(vId);
 
                     if (perId == periodicVerts.end())
                     {
 
                         // This vertex is not included in the map. Figure out which
                         // vertex it is supposed to be periodic with. perFaceId is
                         // the face ID which is periodic with faceId. The logic is
                         // much the same as the loop above.
                         SpatialDomains::PointGeomVector tmpVec[2]
                             = { coordMap[faceId], coordMap[perFaceId] };
                         
                         int nFaceVerts = tmpVec[0].size();
                         StdRegions::Orientation o = nFaceVerts == 3 ? 
                             SpatialDomains::TriGeom::GetFaceOrientation(
                                                                         tmpVec[0], tmpVec[1]) :
                             SpatialDomains::QuadGeom::GetFaceOrientation(
                                                                          tmpVec[0], tmpVec[1]);
                         
                         // Use vmap to determine which vertex of the other face
                         // should be periodic with this one.
                         int perVertexId = vertMap[perFaceId][vmap[nFaceVerts][o][j]];
                         
                         
                         PeriodicEntity ent(perVertexId,
                                            StdRegions::eNoOrientation,
                                            locVerts.count(perVertexId) > 0);
                         
                         periodicVerts[vId].push_back(ent);
                     }
 
                     int eId = edgeIds[cnt];
 
                     perId = periodicEdges.find(eId);
                     
                     if (perId == periodicEdges.end())
                     {
                         // This edge is not included in the map. Figure
                         // out which edge it is supposed to be periodic
                         // with. perFaceId is the face ID which is
                         // periodic with faceId. The logic is much the
                         // same as the loop above.
                         SpatialDomains::PointGeomVector tmpVec[2]
                             = { coordMap[faceId], coordMap[perFaceId] };
                         
                         int nFaceEdges = tmpVec[0].size();
                         StdRegions::Orientation o = nFaceEdges == 3 ? 
                             SpatialDomains::TriGeom::GetFaceOrientation(
                             tmpVec[0], tmpVec[1]) :
                         SpatialDomains::QuadGeom::GetFaceOrientation(
                             tmpVec[0], tmpVec[1]);
                         
                         // Use emap to determine which edge of the other
                         // face should be periodic with this one.
                         int perEdgeId = edgeMap[perFaceId][emap[nFaceEdges][o][j]];
                         
                         
                         PeriodicEntity ent(perEdgeId,
                                            StdRegions::eForwards,
                                            locEdges.count(perEdgeId) > 0);
                         
                         periodicEdges[eId].push_back(ent);
                     }
                 }
             }
 
             // Finally, we must loop over the periodicVerts and periodicEdges
             // map to complete connectivity information.
             PeriodicMap::iterator perIt, perIt2;
             for (perIt  = periodicVerts.begin();
                  perIt != periodicVerts.end(); ++perIt)
             {
                 // For each vertex that is periodic with this one...
                 for (i = 0; i < perIt->second.size(); ++i)
                 {
                     // Find the vertex in the periodicVerts map...
                     perIt2 = periodicVerts.find(perIt->second[i].id);
                     ASSERTL0(perIt2 != periodicVerts.end(),
                              "Couldn't find periodic vertex.");
 
                     // Now search through this vertex's list and make sure that
                     // we have a record of any vertices which aren't in the
                     // original list.
                     for (j = 0; j < perIt2->second.size(); ++j)
                     {
                         if (perIt2->second[j].id == perIt->first)
                         {
                             continue;
                         }
 
                         for (k = 0; k < perIt->second.size(); ++k)
                         {
                             if (perIt2->second[j].id == perIt->second[k].id)
                             {
                                 break;
                             }
                         }
 
                         if (k == perIt->second.size())
                         {
                             perIt->second.push_back(perIt2->second[j]);
                         }
                     }
                 }
             }
 
             for (perIt  = periodicEdges.begin();
                  perIt != periodicEdges.end(); ++perIt)
             {
                 for (i = 0; i < perIt->second.size(); ++i)
                 {
                     perIt2 = periodicEdges.find(perIt->second[i].id);
                     ASSERTL0(perIt2 != periodicEdges.end(),
                              "Couldn't find periodic edge.");
 
                     for (j = 0; j < perIt2->second.size(); ++j)
                     {
                         if (perIt2->second[j].id == perIt->first)
                         {
                             continue;
                         }
 
                         for (k = 0; k < perIt->second.size(); ++k)
                         {
                             if (perIt2->second[j].id == perIt->second[k].id)
                             {
                                 break;
                             }
                         }
 
                         if (k == perIt->second.size())
                         {
                             perIt->second.push_back(perIt2->second[j]);
                         }
                     }
                 }
             }
 
             // Loop over periodic edges to determine relative edge orientations.
             for (perIt  = periodicEdges.begin();
                  perIt != periodicEdges.end(); perIt++)
             {
                 // Find edge coordinates
                 map<int, pair<int, int> >::iterator eIt
                     = eIdMap.find(perIt->first);
                 SpatialDomains::PointGeom v[2] = {
                     *vCoMap[eIt->second.first],
                     *vCoMap[eIt->second.second]
                 };
 
                 // Loop over each edge, and construct a vector that takes us
                 // from one vertex to another. Use this to figure out which
                 // vertex maps to which.
                 for (i = 0; i < perIt->second.size(); ++i)
                 {
                     eIt = eIdMap.find(perIt->second[i].id);
 
                     SpatialDomains::PointGeom w[2] = {
                         *vCoMap[eIt->second.first],
                         *vCoMap[eIt->second.second]
                     };
 
                     NekDouble cx = 0.5*(w[0](0)-v[0](0)+w[1](0)-v[1](0));
                     NekDouble cy = 0.5*(w[0](1)-v[0](1)+w[1](1)-v[1](1));
                     NekDouble cz = 0.5*(w[0](2)-v[0](2)+w[1](2)-v[1](2));
 
                     int vMap[2] = {-1,-1};
                     for (j = 0; j < 2; ++j)
                     {
                         NekDouble x = v[j](0);
                         NekDouble y = v[j](1);
                         NekDouble z = v[j](2);
                         for (k = 0; k < 2; ++k)
                         {
                             NekDouble x1 = w[k](0)-cx;
                             NekDouble y1 = w[k](1)-cy;
                             NekDouble z1 = w[k](2)-cz;
 
                             if (sqrt((x1-x)*(x1-x)+(y1-y)*(y1-y)+(z1-z)*(z1-z))
                                     < 1e-8)
                             {
                                 vMap[k] = j;
                                 break;
                             }
                         }
                     }
 
                     // Sanity check the map.
                     ASSERTL0(vMap[0] >= 0 && vMap[1] >= 0,
                              "Unable to align periodic vertices.");
                     ASSERTL0((vMap[0] == 0 || vMap[0] == 1) &&
                              (vMap[1] == 0 || vMap[1] == 1) &&
                              (vMap[0] != vMap[1]),
                              "Unable to align periodic vertices.");
 
                     // If 0 -> 0 then edges are aligned already; otherwise
                     // reverse the orientation.
                     if (vMap[0] != 0)
                     {
                         perIt->second[i].orient = StdRegions::eBackwards;
                     }
                 }
             }
 
             // Do one final loop over periodic vertices/edges to remove
             // non-local vertices/edges from map.
             for (perIt  = periodicVerts.begin();
                  perIt != periodicVerts.end(); ++perIt)
             {
                 if (locVerts.count(perIt->first) > 0)
                 {
                     m_periodicVerts.insert(*perIt);
                 }
             }
 
             for (perIt  = periodicEdges.begin();
                  perIt != periodicEdges.end(); ++perIt)
             {
                 if (locEdges.count(perIt->first) > 0)
                 {
                     m_periodicEdges.insert(*perIt);
                 }
             }
         }

void Nektar::MultiRegions::DisContField3D::GenerateBoundaryConditionExpansion	(	const SpatialDomains::MeshGraphSharedPtr &	graph3D,
		const SpatialDomains::BoundaryConditions &	bcs,
		const std::string &	variable
	)

protected

According to their boundary region, the separate segmental boundary expansions are bundled together in an object of the class MultiRegions::ExpList2D.

Parameters

graph3D	A mesh, containing information about the domain and the spectral/hp element expansion.
bcs	An entity containing information about the boundaries and boundary conditions.
variable	An optional parameter to indicate for which variable the boundary conditions should be discretised.

Definition at line 608 of file DisContField3D.cpp.

References Nektar::MemoryManager< DataType >::AllocateSharedPtr(), Nektar::SpatialDomains::eDirichlet, Nektar::SpatialDomains::ePeriodic, Nektar::MultiRegions::ExpList::GetBoundaryCondition(), Nektar::SpatialDomains::BoundaryConditions::GetBoundaryConditions(), Nektar::SpatialDomains::BoundaryConditions::GetBoundaryRegions(), m_bndCondExpansions, m_bndConditions, Nektar::MultiRegions::ExpList::m_session, and Nektar::MultiRegions::ExpList::SetUpPhysNormals().

Referenced by DisContField3D().

         {
             int cnt  = 0;
             MultiRegions::ExpList2DSharedPtr       locExpList;
             SpatialDomains::BoundaryConditionShPtr locBCond;
 
             const SpatialDomains::BoundaryRegionCollection    &bregions = 
                 bcs.GetBoundaryRegions();
             const SpatialDomains::BoundaryConditionCollection &bconditions = 
                 bcs.GetBoundaryConditions();
             SpatialDomains::BoundaryRegionCollection::const_iterator it;
 
             // count the number of non-periodic boundary regions
             for (it = bregions.begin(); it != bregions.end(); ++it)
             {
                 SpatialDomains::BoundaryConditionShPtr boundaryCondition = 
                     GetBoundaryCondition(bconditions, it->first, variable);
                 if (boundaryCondition->GetBoundaryConditionType() != 
                         SpatialDomains::ePeriodic)
                 {
                     cnt++;
                 }
             }
 
             m_bndCondExpansions = Array<OneD,MultiRegions::ExpListSharedPtr>(cnt);
             m_bndConditions     = Array<OneD,SpatialDomains::BoundaryConditionShPtr>(cnt);
 
             cnt = 0;
 
             // list Dirichlet boundaries first
             for (it = bregions.begin(); it != bregions.end(); ++it)
             {
                 locBCond = GetBoundaryCondition(
                     bconditions, it->first, variable);
 
                 if(locBCond->GetBoundaryConditionType()
                        != SpatialDomains::ePeriodic)
                 {
                     locExpList = MemoryManager<MultiRegions::ExpList2D>
                         ::AllocateSharedPtr(m_session, *(it->second),
                                             graph3D, variable);
 
                     // Set up normals on non-Dirichlet boundary conditions
                     if(locBCond->GetBoundaryConditionType() != 
                            SpatialDomains::eDirichlet)
                     {
                         SetUpPhysNormals();
                     }
 
                     m_bndCondExpansions[cnt]  = locExpList;
                     m_bndConditions[cnt++]    = locBCond;
                 }
             }
         }

GlobalLinSysSharedPtr Nektar::MultiRegions::DisContField3D::GetGlobalBndLinSys ( const GlobalLinSysKey & mkey )

Definition at line 278 of file DisContField3D.cpp.

References ASSERTL0, ASSERTL1, Nektar::StdRegions::eHybridDGHelmBndLam, Nektar::MultiRegions::ExpList::GenGlobalBndLinSys(), Nektar::MultiRegions::GlobalLinSysKey::GetGlobalSysSolnType(), Nektar::MultiRegions::GlobalMatrixKey::GetMatrixType(), Nektar::iterator, m_globalBndMat, and m_traceMap.

Referenced by v_HelmSolve().

          {
              ASSERTL0(mkey.GetMatrixType() == StdRegions::eHybridDGHelmBndLam,
                       "Routine currently only tested for HybridDGHelmholtz");
              ASSERTL1(mkey.GetGlobalSysSolnType() == 
                       m_traceMap->GetGlobalSysSolnType(),
                       "The local to global map is not set up for the requested "
                       "solution type");
 
              GlobalLinSysSharedPtr glo_matrix;
              GlobalLinSysMap::iterator matrixIter = m_globalBndMat->find(mkey);
 
              if (matrixIter == m_globalBndMat->end())
              {
                  glo_matrix = GenGlobalBndLinSys(mkey, m_traceMap);
                  (*m_globalBndMat)[mkey] = glo_matrix;
              }
              else
              {
                  glo_matrix = matrixIter->second;
              }
 
              return glo_matrix;
          }

bool Nektar::MultiRegions::DisContField3D::GetLeftAdjacentFaces ( int cnt )

inline

Definition at line 86 of file DisContField3D.h.

References m_leftAdjacentFaces.

             {
                 return m_leftAdjacentFaces[cnt];
             }

bool Nektar::MultiRegions::DisContField3D::IsLeftAdjacentFace	(	const int	n,
		const int	e
	)

protected

Definition at line 1634 of file DisContField3D.cpp.

References ASSERTL2, Nektar::iterator, m_boundaryFaces, Nektar::MultiRegions::ExpList::m_exp, m_periodicFaces, m_trace, and m_traceMap.

Referenced by SetUpDG().

         {
             set<int>::iterator it;
             LocalRegions::Expansion2DSharedPtr traceEl = 
                     m_traceMap->GetElmtToTrace()[n][e]->
                          as<LocalRegions::Expansion2D>();
             
             int offset = m_trace->GetPhys_Offset(traceEl->GetElmtId());
             
             bool fwd = true;
             if (traceEl->GetLeftAdjacentElementFace () == -1 ||
                 traceEl->GetRightAdjacentElementFace() == -1)
             {
                 // Boundary edge (1 connected element). Do nothing in
                 // serial.
                 it = m_boundaryFaces.find(traceEl->GetElmtId());
 
                 // If the edge does not have a boundary condition set on
                 // it, then assume it is a partition edge.
                 if (it == m_boundaryFaces.end())
                 {
                     int traceGeomId = traceEl->GetGeom2D()->GetGlobalID();
                     PeriodicMap::iterator pIt = m_periodicFaces.find(
                         traceGeomId);
 
                     if (pIt != m_periodicFaces.end() && !pIt->second[0].isLocal)
                     {
                         fwd = traceGeomId == min(traceGeomId,pIt->second[0].id);
                     }
                     else
                     {
                         fwd = m_traceMap->
                             GetTraceToUniversalMapUnique(offset) >= 0;
                     }
                 }
             }
             else if (traceEl->GetLeftAdjacentElementFace () != -1 &&
                      traceEl->GetRightAdjacentElementFace() != -1)
             {
                 // Non-boundary edge (2 connected elements).
                 fwd = dynamic_cast<Nektar::StdRegions::StdExpansion*>
                     (traceEl->GetLeftAdjacentElementExp().get()) ==
                     (*m_exp)[n].get();
             }
             else
             {
                 ASSERTL2(false, "Unconnected trace element!");
             }
 
             return fwd;
         }

bool Nektar::MultiRegions::DisContField3D::SameTypeOfBoundaryConditions ( const DisContField3D & In )

protected

For each boundary region, checks that the types and number of boundary expansions in that region match.

Parameters

In	ContField3D to compare with.

Returns: true if boundary conditions match.

Definition at line 566 of file DisContField3D.cpp.

References Nektar::MultiRegions::ExpList::GetExpSize(), m_bndCondExpansions, m_bndConditions, Nektar::MultiRegions::ExpList::m_comm, and Nektar::LibUtilities::ReduceMin.

Referenced by Nektar::MultiRegions::ContField3D::ContField3D(), and DisContField3D().

         {
             int i;
             bool returnval = true;
 
             for(i = 0; i < m_bndConditions.num_elements(); ++i)
             {
 
                 // check to see if boundary condition type is the same
                 // and there are the same number of boundary
                 // conditions in the boundary definition.
                 if((m_bndConditions[i]->GetBoundaryConditionType()
                     != In.m_bndConditions[i]->GetBoundaryConditionType())||
                    (m_bndCondExpansions[i]->GetExpSize()
                                     != In.m_bndCondExpansions[i]->GetExpSize()))
                 {
                     returnval = false;
                     break;
                 }
             }
 
             // Compare with all other processes. Return true only if all
             // processes report having the same boundary conditions.
             int vSame = returnval ? 1 : 0;
             m_comm->AllReduce(vSame, LibUtilities::ReduceMin);
 
             return (vSame == 1);
         }

void Nektar::MultiRegions::DisContField3D::SetUpDG ( const std::string variable = "DefaultVar" )

protected

Set up all DG member variables and maps.

Definition at line 307 of file DisContField3D.cpp.

References Nektar::MemoryManager< DataType >::AllocateSharedPtr(), ASSERTL1, Nektar::StdRegions::eDir1BwdDir1_Dir2BwdDir2, Nektar::StdRegions::eDir1BwdDir1_Dir2FwdDir2, Nektar::StdRegions::eDir1BwdDir2_Dir2BwdDir1, Nektar::StdRegions::eDir1BwdDir2_Dir2FwdDir1, Nektar::StdRegions::eDir1FwdDir1_Dir2BwdDir2, Nektar::StdRegions::eDir1FwdDir2_Dir2BwdDir1, Nektar::StdRegions::eDir1FwdDir2_Dir2FwdDir1, Nektar::SpatialDomains::ePeriodic, Nektar::LocalRegions::Expansion3D::GetGeom3D(), Nektar::MultiRegions::_PeriodicEntity::id, IsLeftAdjacentFace(), Nektar::MultiRegions::_PeriodicEntity::isLocal, Nektar::iterator, m_bndCondExpansions, m_bndConditions, m_boundaryFaces, Nektar::MultiRegions::ExpList::m_exp, m_globalBndMat, Nektar::MultiRegions::ExpList::m_graph, m_leftAdjacentFaces, m_locTraceToTraceMap, m_periodicBwdCopy, m_periodicFaces, m_periodicFwdCopy, Nektar::MultiRegions::ExpList::m_session, m_trace, m_traceMap, Nektar::MultiRegions::NullExpListSharedPtr, Nektar::MultiRegions::_PeriodicEntity::orient, Nektar::LocalRegions::Expansion2D::SetAdjacentElementExp(), and Nektar::MultiRegions::ExpList::SetUpPhysNormals().

Referenced by DisContField3D(), and v_GetTrace().

          {
              if (m_trace != NullExpListSharedPtr)
              {
                  return;
              }
 
              ExpList2DSharedPtr trace;
 
              SpatialDomains::MeshGraph3DSharedPtr graph3D = 
                  boost::dynamic_pointer_cast<SpatialDomains::MeshGraph3D>(
                      m_graph);
 
              // Set up matrix map
              m_globalBndMat = MemoryManager<GlobalLinSysMap>::
                  AllocateSharedPtr();
 
              // Set up Trace space
              bool UseGenSegExp = true;
              trace = MemoryManager<ExpList2D>::AllocateSharedPtr(
                  m_session, m_bndCondExpansions, m_bndConditions,
                  *m_exp,graph3D, m_periodicFaces, UseGenSegExp);
 
              m_trace    = trace;
 
              m_traceMap = MemoryManager<AssemblyMapDG>::AllocateSharedPtr(
                  m_session,graph3D,trace,*this,m_bndCondExpansions,
                  m_bndConditions, m_periodicFaces,variable);
 
              if (m_session->DefinesCmdLineArgument("verbose"))
              {
                  m_traceMap->PrintStats(std::cout, variable);
              }
 
              Array<OneD, Array<OneD, LocalRegions::ExpansionSharedPtr> >
                  &elmtToTrace = m_traceMap->GetElmtToTrace();
 
              // Scatter trace segments to 3D elements. For each element, we
              // find the trace segment associated to each edge. The element
              // then retains a pointer to the trace space segments, to ensure
              // uniqueness of normals when retrieving from two adjoining
              // elements which do not lie in a plane.
              for (int i = 0; i < m_exp->size(); ++i)
              {
                  for (int j = 0; j < (*m_exp)[i]->GetNfaces(); ++j)
                  {
                      LocalRegions::Expansion3DSharedPtr exp3d =
                              (*m_exp)[i]->as<LocalRegions::Expansion3D>();
                      LocalRegions::Expansion2DSharedPtr exp2d =
                              elmtToTrace[i][j]->as<LocalRegions::Expansion2D>();
                      exp3d->SetFaceExp           (j, exp2d);
                      exp2d->SetAdjacentElementExp(j, exp3d);
                  }
              }
 
              // Set up physical normals
              SetUpPhysNormals();
 
              // Set up information for parallel jobs.
              for (int i = 0; i < m_trace->GetExpSize(); ++i)
              {
                  LocalRegions::Expansion2DSharedPtr traceEl = 
                          m_trace->GetExp(i)->as<LocalRegions::Expansion2D>();
 
                  int offset      = m_trace->GetPhys_Offset(i);
                  int traceGeomId = traceEl->GetGeom2D()->GetGlobalID();
                  PeriodicMap::iterator pIt = m_periodicFaces.find(
                      traceGeomId);
 
                  if (pIt != m_periodicFaces.end() && !pIt->second[0].isLocal)
                  {
                      if (traceGeomId != min(pIt->second[0].id, traceGeomId))
                      {
                          traceEl->GetLeftAdjacentElementExp()->NegateFaceNormal(
                              traceEl->GetLeftAdjacentElementFace());
                      }
                  }
                  else if (m_traceMap->GetTraceToUniversalMapUnique(offset) < 0)
                  {
                      traceEl->GetLeftAdjacentElementExp()->NegateFaceNormal(
                          traceEl->GetLeftAdjacentElementFace());
                  }
              }
 
              int cnt, n, e;
 
              // Identify boundary faces
              for(cnt = 0, n = 0; n < m_bndCondExpansions.num_elements(); ++n)
              {
                  if (m_bndConditions[n]->GetBoundaryConditionType() != 
                      SpatialDomains::ePeriodic)
                  {
                      for(e = 0; e < m_bndCondExpansions[n]->GetExpSize(); ++e)
                      {
                          m_boundaryFaces.insert(
                              m_traceMap->GetBndCondTraceToGlobalTraceMap(cnt+e));
                      }
                  }
                  cnt += m_bndCondExpansions[n]->GetExpSize();
              }
 
              // Set up information for periodic boundary conditions.
              boost::unordered_map<int,pair<int,int> > perFaceToExpMap;
              boost::unordered_map<int,pair<int,int> >::iterator it2;
              cnt = 0;
              LocalRegions::Expansion3DSharedPtr exp3d;
              for (int n = 0; n < m_exp->size(); ++n)
              {
                  exp3d = (*m_exp)[n]->as<LocalRegions::Expansion3D>();
                  for (int e = 0; e < exp3d->GetNfaces(); ++e, ++cnt)
                  {
                      PeriodicMap::iterator it = m_periodicFaces.find(
                          exp3d->GetGeom3D()->GetFid(e));
 
                      if (it != m_periodicFaces.end())
                      {
                          perFaceToExpMap[it->first] = make_pair(n, e);
                      }
                  }
              }
 
              // Set up left-adjacent face list.
              m_leftAdjacentFaces.resize(cnt);
              cnt = 0;
              for (int i = 0; i < m_exp->size(); ++i)
              {
                  for (int j = 0; j < (*m_exp)[i]->GetNfaces(); ++j, ++cnt)
                  {
                      m_leftAdjacentFaces[cnt] = IsLeftAdjacentFace(i, j);
                  }
              }
 
              // Set up mapping to copy Fwd of periodic bcs to Bwd of other edge.
              cnt = 0;
              for (int n = 0; n < m_exp->size(); ++n)
              {
                  exp3d = (*m_exp)[n]->as<LocalRegions::Expansion3D>();
                  for (int e = 0; e < exp3d->GetNfaces(); ++e, ++cnt)
                  {
                      int faceGeomId = exp3d->GetGeom3D()->GetFid(e);
                      int offset = m_trace->GetPhys_Offset(
                          elmtToTrace[n][e]->GetElmtId());
 
                      // Check to see if this face is periodic.
                      PeriodicMap::iterator it = m_periodicFaces.find(faceGeomId);
                      
                      if (it != m_periodicFaces.end())
                      {
                          const PeriodicEntity &ent = it->second[0];
                          it2 = perFaceToExpMap.find(ent.id);
 
                          if (it2 == perFaceToExpMap.end())
                          {
                              if (m_session->GetComm()->GetSize() > 1 &&
                                  !ent.isLocal)
                              {
                                  continue;
                              }
                              else
                              {
                                  ASSERTL1(false, "Periodic edge not found!");
                              }
                          }
 
                          ASSERTL1(m_leftAdjacentFaces[cnt],
                                   "Periodic face in non-forward space?");
 
                          int offset2 = m_trace->GetPhys_Offset(
                              elmtToTrace[it2->second.first][it2->second.second]->
                                  GetElmtId());
 
                         // Calculate relative orientations between faces to
                         // calculate copying map.
                         int nquad1 = elmtToTrace[n][e]->GetNumPoints(0);
                         int nquad2 = elmtToTrace[n][e]->GetNumPoints(1);
 
                         vector<int> tmpBwd(nquad1*nquad2);
                         vector<int> tmpFwd(nquad1*nquad2);
 
                         if (ent.orient == StdRegions::eDir1FwdDir2_Dir2FwdDir1 ||
                             ent.orient == StdRegions::eDir1BwdDir2_Dir2FwdDir1 ||
                             ent.orient == StdRegions::eDir1FwdDir2_Dir2BwdDir1 ||
                             ent.orient == StdRegions::eDir1BwdDir2_Dir2BwdDir1)
                         {
                             for (int i = 0; i < nquad2; ++i)
                             {
                                 for (int j = 0; j < nquad1; ++j)
                                 {
                                     tmpBwd[i*nquad1+j] = offset2 + i*nquad1+j;
                                     tmpFwd[i*nquad1+j] = offset  + j*nquad2+i;
                                 }
                             }
                         }
                         else
                         {
                             for (int i = 0; i < nquad2; ++i)
                             {
                                 for (int j = 0; j < nquad1; ++j)
                                 {
                                     tmpBwd[i*nquad1+j] = offset2 + i*nquad1+j;
                                     tmpFwd[i*nquad1+j] = offset  + i*nquad1+j;
                                 }
                             }
                         }
 
                         if (ent.orient == StdRegions::eDir1BwdDir1_Dir2FwdDir2 ||
                             ent.orient == StdRegions::eDir1BwdDir1_Dir2BwdDir2 ||
                             ent.orient == StdRegions::eDir1FwdDir2_Dir2BwdDir1 ||
                             ent.orient == StdRegions::eDir1BwdDir2_Dir2BwdDir1)
                         {
                             // Reverse x direction
                             for (int i = 0; i < nquad2; ++i)
                             {
                                 for (int j = 0; j < nquad1/2; ++j)
                                 {
                                     swap(tmpFwd[i*nquad1 + j],
                                          tmpFwd[i*nquad1 + nquad1-j-1]);
                                 }
                             }
                         }
 
                         if (ent.orient == StdRegions::eDir1FwdDir1_Dir2BwdDir2 ||
                             ent.orient == StdRegions::eDir1BwdDir1_Dir2BwdDir2 ||
                             ent.orient == StdRegions::eDir1BwdDir2_Dir2FwdDir1 ||
                             ent.orient == StdRegions::eDir1BwdDir2_Dir2BwdDir1)
                         {
                             // Reverse y direction
                             for (int j = 0; j < nquad1; ++j)
                             {
                                 for (int i = 0; i < nquad2/2; ++i)
                                 {
                                     swap(tmpFwd[i*nquad1 + j],
                                          tmpFwd[(nquad2-i-1)*nquad1 + j]);
                                 }
                             }
                         }
 
                         for (int i = 0; i < nquad1*nquad2; ++i)
                         {
                             m_periodicFwdCopy.push_back(tmpFwd[i]);
                             m_periodicBwdCopy.push_back(tmpBwd[i]);
                         }
                     }
                 }
             }
 
              m_locTraceToTraceMap = MemoryManager<LocTraceToTraceMap>::
                 AllocateSharedPtr(*this, m_trace, elmtToTrace,
                                   m_leftAdjacentFaces);
 
          }

void Nektar::MultiRegions::DisContField3D::v_AddFwdBwdTraceIntegral	(	const Array< OneD, const NekDouble > &	Fwd,
		const Array< OneD, const NekDouble > &	Bwd,
		Array< OneD, NekDouble > &	outarray
	)

protectedvirtual

Add trace contributions into elemental coefficient spaces.

Given some quantity $\vec{Fn}$ , which conatins this routine calculates the integral

$\int_{\Omega^e} \vec{Fn}, \mathrm{d}S$

and adds this to the coefficient space provided by outarray. The value of q is determined from the routine IsLeftAdjacentFace() which if true we use Fwd else we use Bwd

See also: Expansion3D::AddFaceNormBoundaryInt

Parameters

Fwd	The trace quantities associated with left (fwd) adjancent elmt.
Bwd	The trace quantities associated with right (bwd) adjacent elet.
outarray	Resulting 3D coefficient space.

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 1883 of file DisContField3D.cpp.

References m_locTraceToTraceMap, and m_trace.

         {
             Array<OneD, NekDouble> Coeffs(m_trace->GetNcoeffs());
 
             m_trace->IProductWRTBase(Fwd,Coeffs);
             m_locTraceToTraceMap->AddTraceCoeffsToFieldCoeffs(0,Coeffs,outarray);
             m_trace->IProductWRTBase(Bwd,Coeffs);
             m_locTraceToTraceMap->AddTraceCoeffsToFieldCoeffs(1,Coeffs,outarray);
         }

void Nektar::MultiRegions::DisContField3D::v_AddTraceIntegral	(	const Array< OneD, const NekDouble > &	Fn,
		Array< OneD, NekDouble > &	outarray
	)

protectedvirtual

Add trace contributions into elemental coefficient spaces.

Given some quantity $\vec{Fn}$ , which conatins this routine calculates the integral

$\int_{\Omega^e} \vec{Fn}, \mathrm{d}S$

and adds this to the coefficient space provided by outarray.

See also: Expansion3D::AddFaceNormBoundaryInt

Parameters

Fn	The trace quantities.
outarray	Resulting 3D coefficient space.

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 1849 of file DisContField3D.cpp.

References m_locTraceToTraceMap, and m_trace.

         {
 
             Array<OneD, NekDouble> Fcoeffs(m_trace->GetNcoeffs());
             m_trace->IProductWRTBase(Fn, Fcoeffs);
             
             m_locTraceToTraceMap->AddTraceCoeffsToFieldCoeffs(Fcoeffs,
                                                               outarray);
         }

void Nektar::MultiRegions::DisContField3D::v_EvaluateBoundaryConditions	(	const NekDouble	time = `0.0`,
		const std::string	varName = `""`,
		const NekDouble	x2_in = `NekConstants::kNekUnsetDouble`,
		const NekDouble	x3_in = `NekConstants::kNekUnsetDouble`
	)

protectedvirtual

This function evaluates the boundary conditions at a certain time-level.

Based on the boundary condition $g(\boldsymbol{x},t)$ evaluated at a given time-level t, this function transforms the boundary conditions onto the coefficients of the (one-dimensional) boundary expansion. Depending on the type of boundary conditions, these expansion coefficients are calculated in different ways:

Dirichlet boundary conditions
In order to ensure global continuity of the spectral/hp approximation, the Dirichlet boundary conditions are projected onto the boundary expansion by means of a modified continuous Galerkin projection. This projection can be viewed as a collocation projection at the vertices, followed by an projection on the interior modes of the edges. The resulting coefficients $\boldsymbol{\hat{u}}^{\mathcal{D}}$ will be stored for the boundary expansion.
Neumann boundary conditions In the discrete Galerkin formulation of the problem to be solved, the Neumann boundary conditions appear as the set of surface integrals:
$\boldsymbol{\hat{g}}=\int_{\Gamma} \phi^e_n(\boldsymbol{x})g(\boldsymbol{x})d(\boldsymbol{x})\quad \forall n$
As a result, it are the coefficients $\boldsymbol{\hat{g}}$ that will be stored in the boundary expansion

Parameters

time	The time at which the boundary conditions should be evaluated.
bndCondExpansions	List of boundary conditions.
bndConditions	Information about the boundary conditions.

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 2447 of file DisContField3D.cpp.

References ASSERTL0, Nektar::SpatialDomains::eDirichlet, Nektar::SpatialDomains::eNeumann, Nektar::SpatialDomains::eRobin, Nektar::LibUtilities::Equation::Evaluate(), Nektar::MultiRegions::ExpList::ExtractFileBCs(), m_bndCondExpansions, m_bndConditions, Nektar::SpatialDomains::DirichletBoundaryCondition::m_filename, Nektar::SpatialDomains::NeumannBoundaryCondition::m_filename, Nektar::SpatialDomains::RobinBoundaryCondition::m_filename, and Vmath::Vmul().

         {
             int i;
             int npoints;
             int nbnd = m_bndCondExpansions.num_elements();
             MultiRegions::ExpListSharedPtr locExpList;
        
             for (i = 0; i < nbnd; ++i)
             {
                 if (time == 0.0 || m_bndConditions[i]->IsTimeDependent())
                 {
                     locExpList = m_bndCondExpansions[i];
                     npoints    = locExpList->GetNpoints();
                     
                     Array<OneD, NekDouble> x0(npoints, 0.0);
                     Array<OneD, NekDouble> x1(npoints, 0.0);
                     Array<OneD, NekDouble> x2(npoints, 0.0);
                     Array<OneD, NekDouble> valuesFile(npoints, 1.0), valuesExp(npoints, 1.0);
   
                     locExpList->GetCoords(x0, x1, x2);
                     
                     if (m_bndConditions[i]->GetBoundaryConditionType()
                         == SpatialDomains::eDirichlet)
                     {
                         SpatialDomains::DirichletBCShPtr bcPtr = boost::static_pointer_cast<
                             SpatialDomains::DirichletBoundaryCondition>(
                                 m_bndConditions[i]);
                         string filebcs = bcPtr->m_filename;
                         string exprbcs = bcPtr->m_expr;
 
                         if (filebcs != "")
                         {
                             ExtractFileBCs(filebcs, bcPtr->m_comm, varName, locExpList);
                             valuesFile = locExpList->GetPhys();
                         }
                         
                         if (exprbcs != "")
                         {
                             LibUtilities::Equation  condition = boost::static_pointer_cast<SpatialDomains::
                                     DirichletBoundaryCondition >(
                                     m_bndConditions[i])->m_dirichletCondition;
                             
                             condition.Evaluate(x0, x1, x2, time, valuesExp);
                         }
 
                         Vmath::Vmul(npoints, valuesExp, 1, valuesFile, 1, locExpList->UpdatePhys(), 1);
                         
                         locExpList->FwdTrans_BndConstrained(
                             locExpList->GetPhys(),
                             locExpList->UpdateCoeffs());
                     }
                     else if (m_bndConditions[i]->GetBoundaryConditionType()
                              == SpatialDomains::eNeumann)
                     {
                         SpatialDomains::NeumannBCShPtr bcPtr = boost::static_pointer_cast<
                             SpatialDomains::NeumannBoundaryCondition>(
                                 m_bndConditions[i]);
                         string filebcs = bcPtr->m_filename;
 
                         if (filebcs != "")
                         {
                             ExtractFileBCs(filebcs, bcPtr->m_comm, varName, locExpList);
                         }
                         else
                         {
                             
                             LibUtilities::Equation condition = boost::
                                 static_pointer_cast<SpatialDomains::
                                                     NeumannBoundaryCondition>(
                                     m_bndConditions[i])->m_neumannCondition;
                         
                             condition.Evaluate(x0, x1, x2, time, 
                                                locExpList->UpdatePhys());
                             
                             locExpList->IProductWRTBase(locExpList->GetPhys(),
                                                         locExpList->UpdateCoeffs());
                         }
                     }
                     else if (m_bndConditions[i]->GetBoundaryConditionType()
                              == SpatialDomains::eRobin)
                     {
                         SpatialDomains::RobinBCShPtr bcPtr = boost::static_pointer_cast<
                             SpatialDomains::RobinBoundaryCondition>(
                                 m_bndConditions[i]);
                         string filebcs = bcPtr->m_filename;
 
                         if (filebcs != "")
                         {
                             ExtractFileBCs(filebcs, bcPtr->m_comm, varName, locExpList);
                         }
                         else
                         {
                             LibUtilities::Equation condition = boost::
                                 static_pointer_cast<SpatialDomains::
                                                     RobinBoundaryCondition>(
                                     m_bndConditions[i])->m_robinFunction;
 
                             condition.Evaluate(x0, x1, x2, time, 
                                                locExpList->UpdatePhys());
 
                         }
 
                         locExpList->IProductWRTBase(locExpList->GetPhys(),
                                                     locExpList->UpdateCoeffs());
                         
                     }
                     else
                     {
                         ASSERTL0(false, "This type of BC not implemented yet");
                     }
                 }
             }
         }

void Nektar::MultiRegions::DisContField3D::v_ExtractTracePhys ( Array< OneD, NekDouble > & outarray )

protectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 1805 of file DisContField3D.cpp.

References ASSERTL1, Nektar::MultiRegions::ExpList::m_phys, and Nektar::MultiRegions::ExpList::m_physState.

         {
             ASSERTL1(m_physState == true,
                      "Field is not in physical space.");
             
             v_ExtractTracePhys(m_phys, outarray);
         }

void Nektar::MultiRegions::DisContField3D::v_ExtractTracePhys	(	const Array< OneD, const NekDouble > &	inarray,
		Array< OneD, NekDouble > &	outarray
	)

protectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 1814 of file DisContField3D.cpp.

References m_locTraceToTraceMap, m_traceMap, and Vmath::Zero().

         {
 
             Vmath::Zero(outarray.num_elements(), outarray, 1);
 
             Array<OneD, NekDouble> facevals(m_locTraceToTraceMap->GetNFwdLocTracePts());
             m_locTraceToTraceMap->FwdLocTracesFromField(inarray,facevals);
             m_locTraceToTraceMap->InterpLocFacesToTrace(0,facevals,outarray);
 
             // gather entries along parallel partitions which have
             // only filled in Fwd part on their own partition
             m_traceMap->UniversalTraceAssemble(outarray);
 
         }

void Nektar::MultiRegions::DisContField3D::v_GeneralMatrixOp	(	const GlobalMatrixKey &	gkey,
		const Array< OneD, const NekDouble > &	inarray,
		Array< OneD, NekDouble > &	outarray,
		CoeffState	coeffstate = `eLocal`
	)

protectedvirtual

Calculates the result of the multiplication of a global matrix of type specified by mkey with a vector given by inarray.

Parameters

mkey	Key representing desired matrix multiplication.
inarray	Input vector.
outarray	Resulting multiplication.

Reimplemented from Nektar::MultiRegions::ExpList.

Reimplemented in Nektar::MultiRegions::ContField3D.

Definition at line 2163 of file DisContField3D.cpp.

References Nektar::eWrapper, Nektar::MultiRegions::ExpList::GetBlockMatrix(), and m_traceMap.

         {
             int     LocBndCoeffs = m_traceMap->GetNumLocalBndCoeffs();
             Array<OneD, NekDouble> loc_lambda(LocBndCoeffs);
             DNekVec LocLambda(LocBndCoeffs,loc_lambda,eWrapper);
             const DNekScalBlkMatSharedPtr& HDGHelm = GetBlockMatrix(gkey);
 
             m_traceMap->GlobalToLocalBnd(inarray, loc_lambda);
             LocLambda = (*HDGHelm) * LocLambda;
             m_traceMap->AssembleBnd(loc_lambda,outarray);
         }

virtual const Array<OneD,const MultiRegions::ExpListSharedPtr>& Nektar::MultiRegions::DisContField3D::v_GetBndCondExpansions ( void )

inlineprotectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 238 of file DisContField3D.h.

References m_bndCondExpansions.

             {
                 return m_bndCondExpansions;
             }

virtual const Array<OneD,const SpatialDomains::BoundaryConditionShPtr>& Nektar::MultiRegions::DisContField3D::v_GetBndConditions ( void )

inlineprotectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 245 of file DisContField3D.h.

References m_bndConditions.

             {
                 return m_bndConditions;
             }

void Nektar::MultiRegions::DisContField3D::v_GetBndElmtExpansion	(	int	i,
		boost::shared_ptr< ExpList > &	result,
		const bool	DeclareCoeffPhysArrays
	)

protectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 1955 of file DisContField3D.cpp.

References Nektar::MemoryManager< DataType >::AllocateSharedPtr(), Nektar::MultiRegions::ExpList::GetBoundaryToElmtMap(), Nektar::MultiRegions::ExpList::GetCoeff_Offset(), Nektar::MultiRegions::ExpList::GetCoeffs(), Nektar::MultiRegions::ExpList::GetExp(), Nektar::MultiRegions::ExpList::GetPhys(), Nektar::MultiRegions::ExpList::GetPhys_Offset(), m_bndCondExpansions, and Vmath::Vcopy().

         {
             int n, cnt, nq;
             int offsetOld, offsetNew;
             std::vector<unsigned int> eIDs;
             
             Array<OneD, int> ElmtID,EdgeID;
             GetBoundaryToElmtMap(ElmtID,EdgeID);
             
             // Skip other boundary regions
             for (cnt = n = 0; n < i; ++n)
             {
                 cnt += m_bndCondExpansions[n]->GetExpSize();
             }
 
             // Populate eIDs with information from BoundaryToElmtMap
             for (n = 0; n < m_bndCondExpansions[i]->GetExpSize(); ++n)
             {
                 eIDs.push_back(ElmtID[cnt+n]);
             }
             
             // Create expansion list
             result = 
                 MemoryManager<ExpList3D>::AllocateSharedPtr
                     (*this, eIDs, DeclareCoeffPhysArrays);
             
             // Copy phys and coeffs to new explist
             if (DeclareCoeffPhysArrays)
             {
                 Array<OneD, NekDouble> tmp1, tmp2;
                 for (n = 0; n < result->GetExpSize(); ++n)
                 {
                     nq = GetExp(ElmtID[cnt+n])->GetTotPoints();
                     offsetOld = GetPhys_Offset(ElmtID[cnt+n]);
                     offsetNew = result->GetPhys_Offset(n);
                     Vmath::Vcopy(nq, tmp1 = GetPhys()+ offsetOld, 1,
                                 tmp2 = result->UpdatePhys()+ offsetNew, 1);
 
                     nq = GetExp(ElmtID[cnt+n])->GetNcoeffs();
                     offsetOld = GetCoeff_Offset(ElmtID[cnt+n]);
                     offsetNew = result->GetCoeff_Offset(n);
                     Vmath::Vcopy(nq, tmp1 = GetCoeffs()+ offsetOld, 1,
                                 tmp2 = result->UpdateCoeffs()+ offsetNew, 1);
                 }
             }
         }

void Nektar::MultiRegions::DisContField3D::v_GetBoundaryToElmtMap	(	Array< OneD, int > &	ElmtID,
		Array< OneD, int > &	FaceID
	)

protectedvirtual

Set up a list of elemeent IDs and edge IDs that link to the boundary conditions.

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 1900 of file DisContField3D.cpp.

References Nektar::MultiRegions::ExpList::GetExpSize(), m_BCtoElmMap, m_BCtoFaceMap, m_bndCondExpansions, m_bndConditions, and Nektar::MultiRegions::ExpList::m_graph.

         {
             if (m_BCtoElmMap.num_elements() == 0)
             {
                 map<int,int> globalIdMap;
                 int i, n;
                 int cnt;
                 int nbcs = 0;
 
                 SpatialDomains::MeshGraph3DSharedPtr graph3D = 
                     boost::dynamic_pointer_cast<SpatialDomains::MeshGraph3D>(
                         m_graph);
 
                 // Populate global ID map (takes global geometry ID to local
                 // expansion list ID).
                 LocalRegions::Expansion3DSharedPtr exp3d;
                 for (i = 0; i < GetExpSize(); ++i)
                 {
                     exp3d = (*m_exp)[i]->as<LocalRegions::Expansion3D>();
                     globalIdMap[exp3d->GetGeom3D()->GetGlobalID()] = i;
                 }
 
                 // Determine number of boundary condition expansions.
                 for(i = 0; i < m_bndConditions.num_elements(); ++i)
                 {
                     nbcs += m_bndCondExpansions[i]->GetExpSize();
                 }
 
                 // Initialize arrays
                 m_BCtoElmMap = Array<OneD, int>(nbcs);
                 m_BCtoFaceMap = Array<OneD, int>(nbcs);
 
                 LocalRegions::Expansion2DSharedPtr exp2d;
                 for(cnt = n = 0; n < m_bndCondExpansions.num_elements(); ++n)
                 {
                     for(i = 0; i < m_bndCondExpansions[n]->GetExpSize(); ++i, ++cnt)
                     {
                         exp2d = m_bndCondExpansions[n]->GetExp(i)->
                                             as<LocalRegions::Expansion2D>();
                         // Use face to element map from MeshGraph3D.
                         SpatialDomains::ElementFaceVectorSharedPtr tmp = 
                             graph3D->GetElementsFromFace(exp2d->GetGeom2D());
 
                         m_BCtoElmMap[cnt] = globalIdMap[(*tmp)[0]->
                                                   m_Element->GetGlobalID()];
                         m_BCtoFaceMap[cnt] = (*tmp)[0]->m_FaceIndx;
                     }
                 }
             }
             ElmtID = m_BCtoElmMap;
             FaceID = m_BCtoFaceMap;
         }

void Nektar::MultiRegions::DisContField3D::v_GetFwdBwdTracePhys	(	Array< OneD, NekDouble > &	Fwd,
		Array< OneD, NekDouble > &	Bwd
	)

protectedvirtual

This method extracts the "forward" and "backward" trace data from the array field and puts the data into output vectors Fwd and Bwd.

We first define the convention which defines "forwards" and "backwards". First an association is made between the face of each element and its corresponding face in the trace space using the mapping m_traceMap. The element can either be left-adjacent or right-adjacent to this trace face (see Expansion2D::GetLeftAdjacentElementExp). Boundary faces are always left-adjacent since left-adjacency is populated first.

If the element is left-adjacent we extract the face trace data from field into the forward trace space Fwd; otherwise, we place it in the backwards trace space Bwd. In this way, we form a unique set of trace normals since these are always extracted from left-adjacent elements.

Parameters

field is a NekDouble array which contains the 3D data from which we wish to extract the backward and forward orientated trace/face arrays.

Returns: Updates a NekDouble array Fwd and Bwd

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 1711 of file DisContField3D.cpp.

References Nektar::MultiRegions::ExpList::m_phys.

         {
             v_GetFwdBwdTracePhys(m_phys, Fwd, Bwd);
         }

void Nektar::MultiRegions::DisContField3D::v_GetFwdBwdTracePhys	(	const Array< OneD, const NekDouble > &	field,
		Array< OneD, NekDouble > &	Fwd,
		Array< OneD, NekDouble > &	Bwd
	)

protectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 1717 of file DisContField3D.cpp.

References ASSERTL0, Nektar::SpatialDomains::eDirichlet, Nektar::SpatialDomains::eNeumann, Nektar::SpatialDomains::eRobin, Nektar::MultiRegions::ExpList::GetPhys(), m_bndCondExpansions, m_bndConditions, m_locTraceToTraceMap, m_periodicBwdCopy, m_periodicFwdCopy, m_trace, m_traceMap, npts, Vmath::Vcopy(), and Vmath::Zero().

         {
             int n, cnt, npts, e;
 
             // Zero vectors.
             Vmath::Zero(Fwd.num_elements(), Fwd, 1);
             Vmath::Zero(Bwd.num_elements(), Bwd, 1);
              
             Array<OneD, NekDouble> facevals(m_locTraceToTraceMap->
                                             GetNLocTracePts());
             m_locTraceToTraceMap->LocTracesFromField(field,facevals);
             m_locTraceToTraceMap->InterpLocFacesToTrace(0, facevals, Fwd);
             
             Array<OneD, NekDouble> invals = facevals + m_locTraceToTraceMap->
                                                         GetNFwdLocTracePts();
             m_locTraceToTraceMap->InterpLocFacesToTrace(1, invals, Bwd);
             
             // Fill boundary conditions into missing elements
             int id1, id2 = 0;
             cnt = 0;
             
             for(n = 0; n < m_bndCondExpansions.num_elements(); ++n)
             {
                 if(m_bndConditions[n]->GetBoundaryConditionType() == 
                        SpatialDomains::eDirichlet)
                 {
                     for(e = 0; e < m_bndCondExpansions[n]->GetExpSize(); ++e)
                     {
                         npts = m_bndCondExpansions[n]->GetExp(e)->GetTotPoints();
                         id1  = m_bndCondExpansions[n]->GetPhys_Offset(e);
                         id2  = m_trace->GetPhys_Offset(
                             m_traceMap->GetBndCondTraceToGlobalTraceMap(cnt+e));
                         Vmath::Vcopy(npts,
                             &(m_bndCondExpansions[n]->GetPhys())[id1], 1,
                             &Bwd[id2],                                 1);
                     }
 
                     cnt += e;
                 }
                 else if (m_bndConditions[n]->GetBoundaryConditionType() == 
                              SpatialDomains::eNeumann || 
                          m_bndConditions[n]->GetBoundaryConditionType() == 
                              SpatialDomains::eRobin)
                 {
                     for(e = 0; e < m_bndCondExpansions[n]->GetExpSize(); ++e)
                     {
                         npts = m_bndCondExpansions[n]->GetExp(e)->GetTotPoints();
                         id1  = m_bndCondExpansions[n]->GetPhys_Offset(e);
                         id2  = m_trace->GetPhys_Offset(
                             m_traceMap->GetBndCondTraceToGlobalTraceMap(cnt+e));
                         
                         // Turning this off since we can have non-zero
                         //Neumann in mixed CG-DG method
                         //ASSERTL1((m_bndCondExpansions[n]->GetPhys())[id1]
                         //== 0.0, "method not set up for non-zero
                         //Neumann " "boundary condition");
                         
                         Vmath::Vcopy(npts,&Fwd[id2],1,&Bwd[id2],1);
                     }
 
                     cnt += e;
                 }
                 else
                 {
                     ASSERTL0(false, "Method only set up for Dirichlet, Neumann "
                              "and Robin conditions.");
                 }
             }
             
             // Copy any periodic boundary conditions.
             for (n = 0; n < m_periodicFwdCopy.size(); ++n)
             {
                 Bwd[m_periodicBwdCopy[n]] = Fwd[m_periodicFwdCopy[n]];
             }
             
             // Do parallel exchange for forwards/backwards spaces.
             m_traceMap->UniversalTraceAssemble(Fwd);
             m_traceMap->UniversalTraceAssemble(Bwd);
         }

const vector< bool > & Nektar::MultiRegions::DisContField3D::v_GetLeftAdjacentFaces ( void ) const

protectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 1800 of file DisContField3D.cpp.

References m_leftAdjacentFaces.

         {
             return m_leftAdjacentFaces;
         }

virtual void Nektar::MultiRegions::DisContField3D::v_GetPeriodicEntities	(	PeriodicMap &	periodicVerts,
		PeriodicMap &	periodicEdges,
		PeriodicMap &	periodicFaces
	)

inlineprotectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 212 of file DisContField3D.h.

References m_periodicEdges, m_periodicFaces, and m_periodicVerts.

             {
                 periodicVerts = m_periodicVerts;
                 periodicEdges = m_periodicEdges;
                 periodicFaces = m_periodicFaces;
             }

map< int, RobinBCInfoSharedPtr > Nektar::MultiRegions::DisContField3D::v_GetRobinBCInfo ( void )

protectedvirtual

Search through the edge expansions and identify which ones have Robin/Mixed type boundary conditions. If find a Robin boundary then store the edge id of the boundary condition and the array of points of the physical space boundary condition which are hold the boundary condition primitive variable coefficient at the quatrature points

Returns: std map containing the robin boundary condition info using a key of the element id

There is a next member to allow for more than one Robin boundary condition per element

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 2192 of file DisContField3D.cpp.

References Nektar::MemoryManager< DataType >::AllocateSharedPtr(), Nektar::SpatialDomains::eRobin, Nektar::LibUtilities::Equation::Evaluate(), Nektar::MultiRegions::ExpList::GetBoundaryToElmtMap(), m_bndCondExpansions, and m_bndConditions.

         {
             int i,cnt;
             map<int, RobinBCInfoSharedPtr> returnval;
             Array<OneD, int> ElmtID,FaceID;
             GetBoundaryToElmtMap(ElmtID,FaceID);
 
             for(cnt = i = 0; i < m_bndCondExpansions.num_elements(); ++i)
             {
                 MultiRegions::ExpListSharedPtr locExpList;
 
                 if(m_bndConditions[i]->GetBoundaryConditionType() == SpatialDomains::eRobin)
                 {
                     int e,elmtid;
                     Array<OneD, NekDouble> Array_tmp;
 
                     locExpList = m_bndCondExpansions[i];
 
                     int npoints    = locExpList->GetNpoints();
                     Array<OneD, NekDouble> x0(npoints, 0.0);
                     Array<OneD, NekDouble> x1(npoints, 0.0);
                     Array<OneD, NekDouble> x2(npoints, 0.0);
                     Array<OneD, NekDouble> coeffphys(npoints);
 
                     locExpList->GetCoords(x0, x1, x2);
                     
                     LibUtilities::Equation coeffeqn =
                         boost::static_pointer_cast<
                             SpatialDomains::RobinBoundaryCondition>
                         (m_bndConditions[i])->m_robinPrimitiveCoeff;
                     
                     // evalaute coefficient 
                     coeffeqn.Evaluate(x0, x1, x2, 0.0, coeffphys);
 
                     for(e = 0; e < locExpList->GetExpSize(); ++e)
                     {
                         RobinBCInfoSharedPtr rInfo =
                             MemoryManager<RobinBCInfo>
                             ::AllocateSharedPtr(FaceID[cnt+e],
                               Array_tmp = coeffphys +
                               locExpList->GetPhys_Offset(e));
                         
                         elmtid = ElmtID[cnt+e];
                         // make link list if necessary
                         if(returnval.count(elmtid) != 0)
                         {
                             rInfo->next = returnval.find(elmtid)->second;
                         }
                         returnval[elmtid] = rInfo;
                     }
                 }
                 cnt += m_bndCondExpansions[i]->GetExpSize();
             }
 
             return returnval;
         }

virtual ExpListSharedPtr& Nektar::MultiRegions::DisContField3D::v_GetTrace ( )

inlineprotectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 222 of file DisContField3D.h.

References m_trace, Nektar::MultiRegions::NullExpListSharedPtr, and SetUpDG().

             {
                 if(m_trace == NullExpListSharedPtr)
                 {
                     SetUpDG();
                 }
 
                 return m_trace;
             }

virtual AssemblyMapDGSharedPtr& Nektar::MultiRegions::DisContField3D::v_GetTraceMap ( void )

inlineprotectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 232 of file DisContField3D.h.

References m_traceMap.

             {
                 return m_traceMap;
             }

void Nektar::MultiRegions::DisContField3D::v_HelmSolve	(	const Array< OneD, const NekDouble > &	inarray,
		Array< OneD, NekDouble > &	outarray,
		const FlagList &	flags,
		const StdRegions::ConstFactorMap &	factors,
		const StdRegions::VarCoeffMap &	varcoeff,
		const Array< OneD, const NekDouble > &	dirForcing,
		const bool	PhysSpaceForcing
	)

protectedvirtual

Solving Helmholtz Equation in 3D

Reimplemented from Nektar::MultiRegions::ExpList.

Reimplemented in Nektar::MultiRegions::ContField3D.

Definition at line 2021 of file DisContField3D.cpp.

References Nektar::SpatialDomains::eDirichlet, Nektar::StdRegions::eHybridDGHelmBndLam, Nektar::StdRegions::eHybridDGLamToU, Nektar::StdRegions::eInvHybridDGHelmholtz, Nektar::eWrapper, Nektar::MultiRegions::ExpList::GetBlockMatrix(), Nektar::MultiRegions::ExpList::GetExpSize(), GetGlobalBndLinSys(), Nektar::MultiRegions::ExpList::GetNcoeffs(), Nektar::MultiRegions::ExpList::IProductWRTBase(), m_bndCondExpansions, m_bndConditions, Nektar::MultiRegions::ExpList::m_ncoeffs, Nektar::MultiRegions::ExpList::m_offset_elmt_id, m_trace, m_traceMap, Vmath::Neg(), Nektar::MultiRegions::NullAssemblyMapSharedPtr, Vmath::Smul(), Nektar::Transpose(), and Vmath::Zero().

         {
             int i,j,n,cnt,cnt1,nbndry;
             int nexp = GetExpSize();
             StdRegions::StdExpansionSharedPtr BndExp;
 
             Array<OneD,NekDouble> f(m_ncoeffs);
             DNekVec F(m_ncoeffs,f,eWrapper);
             Array<OneD,NekDouble> e_f, e_l;
 
             //----------------------------------
             //  Setup RHS Inner product
             //----------------------------------
             if(PhysSpaceForcing)
             {
                 IProductWRTBase(inarray,f);
                 Vmath::Neg(m_ncoeffs,f,1);
             }
             else
             {
                 Vmath::Smul(m_ncoeffs,-1.0,inarray,1,f,1);
             }
 
             //----------------------------------
             //  Solve continuous flux System
             //----------------------------------
             int GloBndDofs   = m_traceMap->GetNumGlobalBndCoeffs();
             int NumDirichlet = m_traceMap->GetNumLocalDirBndCoeffs();
             int e_ncoeffs,id;
 
             // Retrieve block matrix of U^e
             GlobalMatrixKey HDGLamToUKey(StdRegions::eHybridDGLamToU,NullAssemblyMapSharedPtr,factors,varcoeff);
             const DNekScalBlkMatSharedPtr &HDGLamToU = GetBlockMatrix(HDGLamToUKey);
 
             // Retrieve global trace space storage, \Lambda, from trace expansion
             Array<OneD,NekDouble> BndSol = m_trace->UpdateCoeffs();
 
             // Create trace space forcing, F
             Array<OneD,NekDouble> BndRhs(GloBndDofs,0.0);
 
             // Zero \Lambda
             Vmath::Zero(GloBndDofs,BndSol,1);
 
             // Retrieve number of local trace space coefficients N_{\lambda},
             // and set up local elemental trace solution \lambda^e.
             int     LocBndCoeffs = m_traceMap->GetNumLocalBndCoeffs();
             Array<OneD, NekDouble> loc_lambda(LocBndCoeffs);
             DNekVec LocLambda(LocBndCoeffs,loc_lambda,eWrapper);
 
             //----------------------------------
             // Evaluate Trace Forcing vector F
             // Kirby et al, 2010, P23, Step 5.
             //----------------------------------
             // Loop over all expansions in the domain
             for(cnt = cnt1 = n = 0; n < nexp; ++n)
             {
                 nbndry = (*m_exp)[m_offset_elmt_id[n]]->NumDGBndryCoeffs();
 
                 e_ncoeffs = (*m_exp)[m_offset_elmt_id[n]]->GetNcoeffs();
                 e_f       = f + cnt;
                 e_l       = loc_lambda + cnt1;
 
                 // Local trace space \lambda^e
                 DNekVec     Floc    (nbndry, e_l, eWrapper);
                 // Local forcing f^e
                 DNekVec     ElmtFce (e_ncoeffs, e_f, eWrapper);
                 // Compute local (U^e)^{\top} f^e
                 Floc = Transpose(*(HDGLamToU->GetBlock(n,n)))*ElmtFce;
 
                 cnt   += e_ncoeffs;
                 cnt1  += nbndry;
             }
 
             // Assemble local \lambda_e into global \Lambda
             m_traceMap->AssembleBnd(loc_lambda,BndRhs);
 
             // Copy Dirichlet boundary conditions and weak forcing into trace
             // space
             cnt = 0;
             for(i = 0; i < m_bndCondExpansions.num_elements(); ++i)
             {
                 if(m_bndConditions[i]->GetBoundaryConditionType() == SpatialDomains::eDirichlet)
                 {
                     for(j = 0; j < (m_bndCondExpansions[i])->GetNcoeffs(); ++j)
                     {
                         id = m_traceMap->GetBndCondCoeffsToGlobalCoeffsMap(cnt++);
                         BndSol[id] = m_bndCondExpansions[i]->GetCoeffs()[j];
                     }
                 }
                 else
                 {
                     //Add weak boundary condition to trace forcing
                     for(j = 0; j < (m_bndCondExpansions[i])->GetNcoeffs(); ++j)
                     {
                         id = m_traceMap->GetBndCondCoeffsToGlobalCoeffsMap(cnt++);
                         BndRhs[id] += m_bndCondExpansions[i]->GetCoeffs()[j];
                     }
                 }
             }
 
             //----------------------------------
             // Solve trace problem: \Lambda = K^{-1} F
             // K is the HybridDGHelmBndLam matrix.
             //----------------------------------
             if(GloBndDofs - NumDirichlet > 0)
             {
                 GlobalLinSysKey       key(StdRegions::eHybridDGHelmBndLam,
                                           m_traceMap,factors,varcoeff);
                 GlobalLinSysSharedPtr LinSys = GetGlobalBndLinSys(key);
                 LinSys->Solve(BndRhs,BndSol,m_traceMap);
             }
 
             //----------------------------------
             // Internal element solves
             //----------------------------------
             GlobalMatrixKey invHDGhelmkey(StdRegions::eInvHybridDGHelmholtz,NullAssemblyMapSharedPtr,factors,varcoeff);
             const DNekScalBlkMatSharedPtr& InvHDGHelm = GetBlockMatrix(invHDGhelmkey);
             DNekVec out(m_ncoeffs,outarray,eWrapper);
             Vmath::Zero(m_ncoeffs,outarray,1);
 
             // get local trace solution from BndSol
             m_traceMap->GlobalToLocalBnd(BndSol,loc_lambda);
 
             //  out =  u_f + u_lam = (*InvHDGHelm)*f + (LamtoU)*Lam
             out = (*InvHDGHelm)*F + (*HDGLamToU)*LocLambda;
         }

void Nektar::MultiRegions::DisContField3D::v_Reset ( )

protectedvirtual

Reset this field, so that geometry information can be updated.

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 2007 of file DisContField3D.cpp.

References m_bndCondExpansions, and Nektar::MultiRegions::ExpList::v_Reset().

         {
             ExpList::v_Reset();
 
             // Reset boundary condition expansions.
             for (int n = 0; n < m_bndCondExpansions.num_elements(); ++n)
             {
                 m_bndCondExpansions[n]->Reset();
             }
         }

virtual MultiRegions::ExpListSharedPtr& Nektar::MultiRegions::DisContField3D::v_UpdateBndCondExpansion ( int i )

inlineprotectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 251 of file DisContField3D.h.

             {
                 return m_bndCondExpansions[i];
             }

virtual Array<OneD, SpatialDomains::BoundaryConditionShPtr>& Nektar::MultiRegions::DisContField3D::v_UpdateBndConditions ( )

inlineprotectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 257 of file DisContField3D.h.

References m_bndConditions.

             {
                 return m_bndConditions;
             }

Member Data Documentation

Array<OneD, int> Nektar::MultiRegions::DisContField3D::m_BCtoElmMap

Definition at line 91 of file DisContField3D.h.

Referenced by v_GetBoundaryToElmtMap().

Array<OneD, int> Nektar::MultiRegions::DisContField3D::m_BCtoFaceMap

Definition at line 92 of file DisContField3D.h.

Referenced by v_GetBoundaryToElmtMap().

Array<OneD,MultiRegions::ExpListSharedPtr> Nektar::MultiRegions::DisContField3D::m_bndCondExpansions

protected

An object which contains the discretised boundary conditions.

It is an array of size equal to the number of boundary regions and consists of entries of the type MultiRegions::ExpList2D. Every entry corresponds to the two-dimensional spectral/hp expansion on a single boundary region. The values of the boundary conditions are stored as the coefficients of the two-dimensional expansion.

Definition at line 105 of file DisContField3D.h.

Referenced by Nektar::MultiRegions::ContField3D::ContField3D(), DisContField3D(), GenerateBoundaryConditionExpansion(), Nektar::MultiRegions::ContField3D::GenerateDirBndCondForcing(), Nektar::MultiRegions::ContField3D::GetBndCondExp(), Nektar::MultiRegions::ContField3D::GetBndCondExpansions(), SameTypeOfBoundaryConditions(), SetUpDG(), v_EvaluateBoundaryConditions(), Nektar::MultiRegions::ContField3D::v_FillBndCondFromField(), v_GetBndCondExpansions(), v_GetBndElmtExpansion(), v_GetBoundaryToElmtMap(), v_GetFwdBwdTracePhys(), v_GetRobinBCInfo(), Nektar::MultiRegions::ContField3D::v_HelmSolve(), v_HelmSolve(), Nektar::MultiRegions::ContField3D::v_ImposeDirichletConditions(), Nektar::MultiRegions::ContField3D::v_LinearAdvectionDiffusionReactionSolve(), and v_Reset().