Abstraction of a three-dimensional multi-elemental expansion which is merely a collection of local expansions. More...

#include <ExpList3D.h>

Inheritance diagram for Nektar::MultiRegions::ExpList3D:

Collaboration diagram for Nektar::MultiRegions::ExpList3D:

Public Member Functions
	ExpList3D ()
	Default constructor. More...

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

	ExpList3D (const ExpList3D &In, const std::vector< unsigned int > &eIDs)
	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)
	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	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	LocalToGlobal (void)
	Put the coefficients into global ordering using m_coeffs. More...

void	GlobalToLocal (void)
	Put the coefficients into local ordering and place in m_coeffs. More...

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)

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)

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	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 ()
	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)

Protected Member Functions
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 const Array< OneD, const boost::shared_ptr < ExpList > > &	v_GetBndCondExpansions (void)

virtual boost::shared_ptr < ExpList > &	v_UpdateBndCondExpansion (int i)

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 boost::shared_ptr < ExpList > &	v_GetTrace ()

virtual boost::shared_ptr < AssemblyMapDG > &	v_GetTraceMap ()

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

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

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

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_MultiplyByInvMassMatrix (const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray, CoeffState coeffstate)

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)

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_Reset ()
	Reset geometry information, metrics, matrix managers and geometry information. More...

virtual void	v_LocalToGlobal (void)

virtual void	v_GlobalToLocal (void)

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_GeneralMatrixOp (const GlobalMatrixKey &gkey, const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray, CoeffState coeffstate)

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_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_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_GetBoundaryToElmtMap (Array< OneD, int > &ElmtID, Array< OneD, int > &EdgeID)

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

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_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, const std::string &varName, const boost::shared_ptr< ExpList > locExpList)

Private Member Functions
void	SetCoeffPhys (void)
	Definition of the total number of degrees of freedom and quadrature points. Sets up the storage for m_coeff and m_phys. More...

virtual void	v_ReadGlobalOptimizationParameters ()

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

virtual void	v_PhysInterp1DScaled (const NekDouble scale, const Array< OneD, NekDouble > &inarray, Array< OneD, NekDouble > &outarray)

virtual void	v_PhysGalerkinProjection1DScaled (const NekDouble scale, const Array< OneD, NekDouble > &inarray, Array< OneD, NekDouble > &outarray)

Additional Inherited Members
Public Attributes inherited from Nektar::MultiRegions::ExpList
ExpansionType	m_expType

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

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

Detailed Description

Abstraction of a three-dimensional multi-elemental expansion which is merely a collection of local expansions.

Definition at line 49 of file ExpList3D.h.

Constructor & Destructor Documentation

Nektar::MultiRegions::ExpList3D::ExpList3D ( )

Default constructor.

Definition at line 54 of file ExpList3D.cpp.

References Nektar::MultiRegions::e3D, and Nektar::MultiRegions::ExpList::SetExpType().

                             : ExpList()
         {
             SetExpType(e3D);
         }

Nektar::MultiRegions::ExpList3D::ExpList3D ( const ExpList3D & In )

Copy constructor.

Definition at line 59 of file ExpList3D.cpp.

References Nektar::MultiRegions::e3D, and Nektar::MultiRegions::ExpList::SetExpType().

                                                : ExpList(In)
         {
             SetExpType(e3D);
         }

Nektar::MultiRegions::ExpList3D::ExpList3D	(	const ExpList3D &	In,
		const std::vector< unsigned int > &	eIDs
	)

Constructor copying only elements defined in eIds.

Definition at line 64 of file ExpList3D.cpp.

References Nektar::MemoryManager< DataType >::AllocateSharedPtr(), Nektar::MultiRegions::ExpList::CreateCollections(), Nektar::MultiRegions::e3D, Nektar::MultiRegions::ExpList::GetExpSize(), Nektar::MultiRegions::ExpList::m_globalOptParam, Nektar::MultiRegions::ExpList::ReadGlobalOptimizationParameters(), SetCoeffPhys(), and Nektar::MultiRegions::ExpList::SetExpType().

                                                     : ExpList(In, eIDs)
         {
             SetExpType(e3D);
             
             // Setup Default optimisation information.
             int nel = GetExpSize();
             m_globalOptParam = MemoryManager<NekOptimize::GlobalOptParam>
                 ::AllocateSharedPtr(nel);
 
             SetCoeffPhys();
 
             ReadGlobalOptimizationParameters();
             CreateCollections();
         }

Nektar::MultiRegions::ExpList3D::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`
	)

Definition at line 85 of file ExpList3D.cpp.

                                                                 :
             ExpList(pSession,graph3D)
         {
             SetExpType(e3D);
 
             LocalRegions::TetExpSharedPtr tet;
             LocalRegions::HexExpSharedPtr hex;
             LocalRegions::PrismExpSharedPtr prism;
             LocalRegions::PyrExpSharedPtr pyramid;
 
             const SpatialDomains::ExpansionMap &expansions = graph3D->GetExpansions();
 
             SpatialDomains::ExpansionMap::const_iterator expIt;
             for (expIt = expansions.begin(); expIt != expansions.end(); ++expIt)
             {
                 SpatialDomains::TetGeomSharedPtr TetGeom;
                 SpatialDomains::HexGeomSharedPtr HexGeom;
                 SpatialDomains::PrismGeomSharedPtr PrismGeom;
                 SpatialDomains::PyrGeomSharedPtr PyrGeom;
 
                 if((TetGeom = boost::dynamic_pointer_cast<SpatialDomains::TetGeom>(expIt->second->m_geomShPtr)))
                 {
                     if(TetNb < LibUtilities::SIZE_PointsType)
                     {
 //                         Ntet = MemoryManager<LocalRegions::NodalTetExp>::AllocateSharedPtr(TetBa,TetBb,TetBc,TetNb,TetGeom);
 //                         (*m_exp).push_back(Ntet);
                     }
                     else
                     {
                         tet = MemoryManager<LocalRegions::TetExp>::AllocateSharedPtr(TBa,TBb,TBc,TetGeom);
                         (*m_exp).push_back(tet);
                     }
 
                     m_ncoeffs += LibUtilities::StdTetData::getNumberOfCoefficients(TBa.GetNumModes(), TBb.GetNumModes(), TBc.GetNumModes());
                     
                     m_npoints += TBa.GetNumPoints()*TBb.GetNumPoints()*TBc.GetNumPoints();
                 }
 /*
                 else if((PrismGeom = boost::dynamic_pointer_cast<SpatialDomains::PrismGeom>(expansions[i]->m_geomShPtr)))
                 {
                       prism = MemoryManager<LocalRegions::PrismExp>::AllocateSharedPtr(Ba,Bb,Bc,PrismGeom);
                       (*m_exp).push_back(prism);
 
                       m_ncoeffs += StdRegions::StdPrismData::getNumberOfCoefficients(Ba.GetNumModes(), Bb.GetNumModes(), Bc.GetNumModes());
                       m_npoints +=  Ba.GetNumPoints()*Bb.GetNumPoints()*Bc.GetNumPoints();
 
                 }
                 else if((PyrGeom = boost::dynamic_pointer_cast<SpatialDomains::PyrGeom>(expansions[i]->m_geomShPtr)))
                 {
                      pyramid = MemoryManager<LocalRegions::PyrExp>::AllocateSharedPtr(Ba,Bb,Bc,PyrGeom);
                      (*m_exp).push_back(pyramid);
 
                      m_ncoeffs += StdRegions::StdPyrData::getNumberOfCoefficients(Ba.GetNumModes(), Bb.GetNumModes(), Bc.GetNumModes());
                       m_npoints +=  Ba.GetNumPoints()*Bb.GetNumPoints()*Bc.GetNumPoints();
 
                 }
 */
                 else if((HexGeom = boost::dynamic_pointer_cast<SpatialDomains::HexGeom>(expIt->second->m_geomShPtr)))
                 {
                     hex = MemoryManager<LocalRegions::HexExp>::AllocateSharedPtr(HBa,HBb,HBc, HexGeom);
                     (*m_exp).push_back(hex);
 
                     m_ncoeffs += HBa.GetNumModes()*HBb.GetNumModes()*HBc.GetNumModes();
                     m_npoints += HBa.GetNumPoints()*HBb.GetNumPoints()*HBc.GetNumPoints();
                 }
                 else
                 {
                     ASSERTL0(false,"dynamic cast to a proper Geometry3D failed");
                 }
 
             }
 
             // Setup Default optimisation information.
             int nel = GetExpSize();
             m_globalOptParam = MemoryManager<NekOptimize::GlobalOptParam>
                 ::AllocateSharedPtr(nel);
 
             SetCoeffPhys();
 
             ReadGlobalOptimizationParameters();
             CreateCollections();
         }

Nektar::MultiRegions::ExpList3D::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.

Given a mesh graph3D, containing information about the domain and the spectral/hp element expansion, this constructor fills the list of local expansions {m_exp} with the proper expansions, calculates the total number of quadrature points $\boldsymbol{x}_i$ and the local expansion coefficients $\hat{u}^e_n$ and allocates memory for the arrays m_coeffs and m_phys.

Parameters

graph3D A mesh, containing information about the domain and the spectral/hp element expansion.

Definition at line 188 of file ExpList3D.cpp.

References Nektar::MemoryManager< DataType >::AllocateSharedPtr(), ASSERTL0, Nektar::MultiRegions::ExpList::CreateCollections(), Nektar::MultiRegions::e3D, Nektar::LibUtilities::eGauss_Lagrange, Nektar::LibUtilities::eGLL_Lagrange, Nektar::LibUtilities::BasisKey::GetBasisType(), Nektar::MultiRegions::ExpList::GetExpSize(), Nektar::MultiRegions::ExpList::m_globalOptParam, Nektar::MultiRegions::ExpList::ReadGlobalOptimizationParameters(), SetCoeffPhys(), and Nektar::MultiRegions::ExpList::SetExpType().

                                                          :
             ExpList(pSession,graph3D)
         {
             SetExpType(e3D);
 
             int elmtid = 0;
             LocalRegions::TetExpSharedPtr   tet;
             LocalRegions::HexExpSharedPtr   hex;
             LocalRegions::PrismExpSharedPtr prism;
             LocalRegions::PyrExpSharedPtr   pyramid;
 
             const SpatialDomains::ExpansionMap &expansions
                                         = graph3D->GetExpansions(variable);
 
             SpatialDomains::ExpansionMap::const_iterator expIt;
             for (expIt = expansions.begin(); expIt != expansions.end(); ++expIt)
             {
                 SpatialDomains::TetGeomSharedPtr   TetGeom;
                 SpatialDomains::HexGeomSharedPtr   HexGeom;
                 SpatialDomains::PrismGeomSharedPtr PrismGeom;
                 SpatialDomains::PyrGeomSharedPtr   PyrGeom;
 
                 if((TetGeom = boost::dynamic_pointer_cast<
                         SpatialDomains::TetGeom>(expIt->second->m_geomShPtr)))
                 {
                     LibUtilities::BasisKey TetBa
                                         = expIt->second->m_basisKeyVector[0];
                     LibUtilities::BasisKey TetBb
                                         = expIt->second->m_basisKeyVector[1];
                     LibUtilities::BasisKey TetBc
                                         = expIt->second->m_basisKeyVector[2];
 
                     if(TetBa.GetBasisType() == LibUtilities::eGLL_Lagrange ||
                        TetBa.GetBasisType() == LibUtilities::eGauss_Lagrange)
                     {
                       ASSERTL0(false,"LocalRegions::NodalTetExp is not "
                                      "implemented yet");
                     }
                     else
                     {
                         tet = MemoryManager<LocalRegions::TetExp>
                                         ::AllocateSharedPtr(TetBa,TetBb,TetBc,
                                                             TetGeom);
                         tet->SetElmtId(elmtid++);
                         (*m_exp).push_back(tet);
                     }
                 }
                 else if((PrismGeom = boost::dynamic_pointer_cast<SpatialDomains
                              ::PrismGeom>(expIt->second->m_geomShPtr)))
                 {
                     LibUtilities::BasisKey PrismBa
                                         = expIt->second->m_basisKeyVector[0];
                     LibUtilities::BasisKey PrismBb
                                         = expIt->second->m_basisKeyVector[1];
                     LibUtilities::BasisKey PrismBc
                                         = expIt->second->m_basisKeyVector[2];
 
                     prism = MemoryManager<LocalRegions::PrismExp>
                                         ::AllocateSharedPtr(PrismBa,PrismBb,
                                                             PrismBc,PrismGeom);
                     prism->SetElmtId(elmtid++);
                     (*m_exp).push_back(prism);
                 }
                 else if((PyrGeom = boost::dynamic_pointer_cast<
                          SpatialDomains::PyrGeom>(expIt->second->m_geomShPtr)))
                 {
                     LibUtilities::BasisKey PyrBa
                                         = expIt->second->m_basisKeyVector[0];
                     LibUtilities::BasisKey PyrBb
                                         = expIt->second->m_basisKeyVector[1];
                     LibUtilities::BasisKey PyrBc
                                         = expIt->second->m_basisKeyVector[2];
 
                     pyramid = MemoryManager<LocalRegions::PyrExp>
                                         ::AllocateSharedPtr(PyrBa,PyrBb,PyrBc,
                                                             PyrGeom);
                     pyramid->SetElmtId(elmtid++);
                     (*m_exp).push_back(pyramid);
                 }
                 else if((HexGeom = boost::dynamic_pointer_cast<
                          SpatialDomains::HexGeom>(expIt->second->m_geomShPtr)))
                 {
                     LibUtilities::BasisKey HexBa
                                         = expIt->second->m_basisKeyVector[0];
                     LibUtilities::BasisKey HexBb
                                         = expIt->second->m_basisKeyVector[1];
                     LibUtilities::BasisKey HexBc
                                         = expIt->second->m_basisKeyVector[2];
 
                     hex = MemoryManager<LocalRegions::HexExp>
                                         ::AllocateSharedPtr(HexBa,HexBb,HexBc,
                                                             HexGeom);
                     hex->SetElmtId(elmtid++);
                     (*m_exp).push_back(hex);
                 }
                 else
                 {
                     ASSERTL0(false,"dynamic cast to a proper Geometry3D "
                                    "failed");
                 }
 
             }
 
             // Setup Default optimisation information.
             int nel = GetExpSize();
             m_globalOptParam = MemoryManager<NekOptimize::GlobalOptParam>
                 ::AllocateSharedPtr(nel);
 
             SetCoeffPhys();
             ReadGlobalOptimizationParameters();
             CreateCollections();
         }

Nektar::MultiRegions::ExpList3D::ExpList3D ( const SpatialDomains::ExpansionMap & expansions )

Sets up a list of local expansions based on an expansion vector.

Given an expansion vector expansions, containing information about the domain and the spectral/hp element expansion, this constructor fills the list of local expansions {m_exp} with the proper expansions, calculates the total number of quadrature points $\boldsymbol{x}_i$ and the local expansion coefficients $\hat{u}^e_n$ and allocates memory for the arrays m_coeffs and m_phys.

Parameters

expansions An expansion vector, containing information about the domain and the spectral/hp element expansion.

Definition at line 317 of file ExpList3D.cpp.

References Nektar::MemoryManager< DataType >::AllocateSharedPtr(), ASSERTL0, ASSERTL1, Nektar::MultiRegions::ExpList::CreateCollections(), Nektar::MultiRegions::e3D, Nektar::LibUtilities::eGauss_Lagrange, Nektar::LibUtilities::eGLL_Lagrange, Nektar::LibUtilities::BasisKey::GetBasisType(), Nektar::MultiRegions::ExpList::GetExpSize(), Nektar::MultiRegions::ExpList::m_globalOptParam, SetCoeffPhys(), and Nektar::MultiRegions::ExpList::SetExpType().

                                                                         :
             ExpList()
         {
             SetExpType(e3D);
 
             int elmtid = 0;
             LocalRegions::TetExpSharedPtr tet;
             LocalRegions::HexExpSharedPtr hex;
             LocalRegions::PrismExpSharedPtr prism;
             LocalRegions::PyrExpSharedPtr pyramid;
 
 
             for(int i = 0; i < expansions.size(); ++i)
             {
                 SpatialDomains::TetGeomSharedPtr TetGeom;
                 SpatialDomains::HexGeomSharedPtr HexGeom;
                 SpatialDomains::PrismGeomSharedPtr PrismGeom;
                 SpatialDomains::PyrGeomSharedPtr PyrGeom;
 
                 SpatialDomains::ExpansionMap::const_iterator expmap = expansions.find(i);
                 ASSERTL1(expmap != expansions.end(), "Unable to find expansion.");
                 const SpatialDomains::ExpansionShPtr exp = expmap->second;
 
                 if((TetGeom = boost::dynamic_pointer_cast<
                         SpatialDomains::TetGeom>(exp->m_geomShPtr)))
                 {
                     LibUtilities::BasisKey TetBa
                                         = exp->m_basisKeyVector[0];
                     LibUtilities::BasisKey TetBb
                                         = exp->m_basisKeyVector[1];
                     LibUtilities::BasisKey TetBc
                                         = exp->m_basisKeyVector[2];
 
                     if(TetBa.GetBasisType() == LibUtilities::eGLL_Lagrange ||
                        TetBa.GetBasisType() == LibUtilities::eGauss_Lagrange)
                     {
                       ASSERTL0(false,"LocalRegions::NodalTetExp is not "
                                      "implemented yet");
                     }
                     else
                     {
                         tet = MemoryManager<LocalRegions::TetExp>
                                         ::AllocateSharedPtr(TetBa,TetBb,TetBc,
                                                             TetGeom);
                         tet->SetElmtId(elmtid++);
                         (*m_exp).push_back(tet);
                     }
                 }
                 else if((PrismGeom = boost::dynamic_pointer_cast<
                          SpatialDomains::PrismGeom>(exp->m_geomShPtr)))
                 {
                     LibUtilities::BasisKey PrismBa
                                         = exp->m_basisKeyVector[0];
                     LibUtilities::BasisKey PrismBb
                                         = exp->m_basisKeyVector[1];
                     LibUtilities::BasisKey PrismBc
                                         = exp->m_basisKeyVector[2];
 
                     prism = MemoryManager<LocalRegions::PrismExp>
                                         ::AllocateSharedPtr(PrismBa,PrismBb,
                                                             PrismBc,PrismGeom);
                     prism->SetElmtId(elmtid++);
                     (*m_exp).push_back(prism);
                 }
                 else if((PyrGeom = boost::dynamic_pointer_cast<
                          SpatialDomains::PyrGeom>(exp->m_geomShPtr)))
                 {
                     LibUtilities::BasisKey PyrBa
                                         = exp->m_basisKeyVector[0];
                     LibUtilities::BasisKey PyrBb
                                         = exp->m_basisKeyVector[1];
                     LibUtilities::BasisKey PyrBc
                                         = exp->m_basisKeyVector[2];
 
                     pyramid = MemoryManager<LocalRegions::PyrExp>
                                         ::AllocateSharedPtr(PyrBa,PyrBb,PyrBc,
                                                             PyrGeom);
                     pyramid->SetElmtId(elmtid++);
                     (*m_exp).push_back(pyramid);
                 }
                 else if((HexGeom = boost::dynamic_pointer_cast<
                          SpatialDomains::HexGeom>(exp->m_geomShPtr)))
                 {
                     LibUtilities::BasisKey HexBa
                                         = exp->m_basisKeyVector[0];
                     LibUtilities::BasisKey HexBb
                                         = exp->m_basisKeyVector[1];
                     LibUtilities::BasisKey HexBc
                                         = exp->m_basisKeyVector[2];
 
                     hex = MemoryManager<LocalRegions::HexExp>
                                         ::AllocateSharedPtr(HexBa,HexBb,HexBc,
                                                             HexGeom);
                     hex->SetElmtId(elmtid++);
                     (*m_exp).push_back(hex);
                 }
                 else
                 {
                     ASSERTL0(false,"dynamic cast to a proper Geometry3D "
                                    "failed");
                 }
 
             }
 
             // Setup Default optimisation information.
             int nel = GetExpSize();
             m_globalOptParam = MemoryManager<NekOptimize::GlobalOptParam>
                 ::AllocateSharedPtr(nel);
 
             SetCoeffPhys();
             CreateCollections();
         }

Nektar::MultiRegions::ExpList3D::~ExpList3D ( )

virtual

Destructor.

Definition at line 80 of file ExpList3D.cpp.

81 {

82 }

Member Function Documentation

void Nektar::MultiRegions::ExpList3D::SetCoeffPhys ( void )

private

Definition of the total number of degrees of freedom and quadrature points. Sets up the storage for m_coeff and m_phys.

Set up the storage for the concatenated list of coefficients and physical evaluations at the quadrature points. Each expansion (local element) is processed in turn to determine the number of coefficients and physical data points it contributes to the domain. Three arrays, m_coeff_offset, m_phys_offset and m_offset_elmt_id, are also initialised and updated to store the data offsets of each element in the m_coeffs and m_phys arrays, and the element id that each consecutive block is associated respectively.

Definition at line 442 of file ExpList3D.cpp.

References Nektar::MultiRegions::ExpList::m_coeff_offset, Nektar::MultiRegions::ExpList::m_coeffs, Nektar::MultiRegions::ExpList::m_exp, Nektar::MultiRegions::ExpList::m_ncoeffs, Nektar::MultiRegions::ExpList::m_npoints, Nektar::MultiRegions::ExpList::m_offset_elmt_id, Nektar::MultiRegions::ExpList::m_phys, and Nektar::MultiRegions::ExpList::m_phys_offset.

Referenced by ExpList3D().

         {
             int i;
 
             // Set up offset information and array sizes
             m_coeff_offset   = Array<OneD,int>(m_exp->size());
             m_phys_offset    = Array<OneD,int>(m_exp->size());
             m_offset_elmt_id = Array<OneD,int>(m_exp->size());
 
             m_ncoeffs = m_npoints = 0;
 
             for(i = 0; i < m_exp->size(); ++i)
             {
                 m_coeff_offset[i]   = m_ncoeffs;
                 m_phys_offset [i]   = m_npoints;
                 m_offset_elmt_id[i] = i;
                 m_ncoeffs += (*m_exp)[i]->GetNcoeffs();
                 m_npoints += (*m_exp)[i]->GetTotPoints();
             }
 
             m_coeffs = Array<OneD, NekDouble>(m_ncoeffs);
             m_phys   = Array<OneD, NekDouble>(m_npoints);
         }

void Nektar::MultiRegions::ExpList3D::v_PhysGalerkinProjection1DScaled	(	const NekDouble	scale,
		const Array< OneD, NekDouble > &	inarray,
		Array< OneD, NekDouble > &	outarray
	)

privatevirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 612 of file ExpList3D.cpp.

References Nektar::MultiRegions::ExpList::GetExpSize(), Nektar::MultiRegions::ExpList::m_exp, and Nektar::LibUtilities::PhysGalerkinProject3D().

         {
             int cnt,cnt1;
 
             cnt = cnt1 = 0;
             for(int i = 0; i < GetExpSize(); ++i)
             {
                 // get new points key
                 int pt0 = (*m_exp)[i]->GetNumPoints(0);
                 int pt1 = (*m_exp)[i]->GetNumPoints(1);
                 int pt2 = (*m_exp)[i]->GetNumPoints(2);
                 int npt0 = (int) pt0*scale;
                 int npt1 = (int) pt1*scale;
                 int npt2 = (int) pt2*scale;
                 
                 LibUtilities::PointsKey newPointsKey0(npt0,(*m_exp)[i]->GetPointsType(0));
                 LibUtilities::PointsKey newPointsKey1(npt1,(*m_exp)[i]->GetPointsType(1));
                 LibUtilities::PointsKey newPointsKey2(npt2,(*m_exp)[i]->GetPointsType(2));
 
                 // Project points; 
                 LibUtilities::PhysGalerkinProject3D(newPointsKey0, 
                                                     newPointsKey1,
                                                     newPointsKey2,
                                                     &inarray[cnt],
                                        (*m_exp)[i]->GetBasis(0)->GetPointsKey(),
                                        (*m_exp)[i]->GetBasis(1)->GetPointsKey(),
                                        (*m_exp)[i]->GetBasis(2)->GetPointsKey(),
                                        &outarray[cnt1]);
                 
                 cnt  += npt0*npt1*npt2;
                 cnt1 += pt0*pt1*pt2;
             }
 
         }

void Nektar::MultiRegions::ExpList3D::v_PhysInterp1DScaled	(	const NekDouble	scale,
		const Array< OneD, NekDouble > &	inarray,
		Array< OneD, NekDouble > &	outarray
	)

privatevirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 578 of file ExpList3D.cpp.

References Nektar::MultiRegions::ExpList::GetExpSize(), Nektar::LibUtilities::Interp3D(), and Nektar::MultiRegions::ExpList::m_exp.

         {
             int cnt,cnt1;
 
             cnt = cnt1 = 0;
             for(int i = 0; i < GetExpSize(); ++i)
             {
                 // get new points key
                 int pt0 = (*m_exp)[i]->GetNumPoints(0);
                 int pt1 = (*m_exp)[i]->GetNumPoints(1);
                 int pt2 = (*m_exp)[i]->GetNumPoints(2);
                 int npt0 = (int) pt0*scale;
                 int npt1 = (int) pt1*scale;
                 int npt2 = (int) pt2*scale;
                 
                 LibUtilities::PointsKey newPointsKey0(npt0,(*m_exp)[i]->GetPointsType(0));
                 LibUtilities::PointsKey newPointsKey1(npt1,(*m_exp)[i]->GetPointsType(1));
                 LibUtilities::PointsKey newPointsKey2(npt2,(*m_exp)[i]->GetPointsType(2));
 
                 // Interpolate points; 
                 LibUtilities::Interp3D((*m_exp)[i]->GetBasis(0)->GetPointsKey(),
                                        (*m_exp)[i]->GetBasis(1)->GetPointsKey(),
                                        (*m_exp)[i]->GetBasis(2)->GetPointsKey(),
                                        &inarray[cnt], newPointsKey0,
                                        newPointsKey1, newPointsKey2,
                                        &outarray[cnt1]);
 
                 cnt  += pt0*pt1*pt2;
                 cnt1 += npt0*npt1*npt2;
             }
         }

void Nektar::MultiRegions::ExpList3D::v_ReadGlobalOptimizationParameters ( )

privatevirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 466 of file ExpList3D.cpp.

References Nektar::MemoryManager< DataType >::AllocateSharedPtr(), ASSERTL0, Nektar::LibUtilities::eHexahedron, Nektar::LibUtilities::ePrism, Nektar::LibUtilities::ePyramid, Nektar::LibUtilities::eTetrahedron, Nektar::MultiRegions::ExpList::GetExpSize(), Nektar::MultiRegions::ExpList::m_exp, Nektar::MultiRegions::ExpList::m_globalOptParam, and Nektar::MultiRegions::ExpList::m_session.

         {
             Array<OneD, int> NumShape(4,0);
 
             for(int i = 0; i < GetExpSize(); ++i)
             {
                 switch ((*m_exp)[i]->DetShapeType())
                 {
                     case LibUtilities::eTetrahedron:  NumShape[0]++; break;
                     case LibUtilities::ePyramid:      NumShape[1]++; break;
                     case LibUtilities::ePrism:        NumShape[2]++; break;
                     case LibUtilities::eHexahedron:   NumShape[3]++; break;
                     default:
                         ASSERTL0(false, "Unknown expansion type.");
                         break;
                 }
             }
 
             int three = 3;
             m_globalOptParam = MemoryManager<NekOptimize::GlobalOptParam>
                 ::AllocateSharedPtr(m_session,three,NumShape);
         }

void Nektar::MultiRegions::ExpList3D::v_SetUpPhysNormals ( )

protectedvirtual

Set up the normals on each expansion.

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 566 of file ExpList3D.cpp.

References Nektar::MultiRegions::ExpList::m_exp.

         {
             int i, j;
             for (i = 0; i < m_exp->size(); ++i)
             {
                 for (j = 0; j < (*m_exp)[i]->GetNfaces(); ++j)
                 {
                     (*m_exp)[i]->ComputeFaceNormal(j);
                 }
             }
         }

void Nektar::MultiRegions::ExpList3D::v_WriteVtkPieceHeader	(	std::ostream &	outfile,
		int	expansion,
		int	istrip
	)

privatevirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 489 of file ExpList3D.cpp.

         {
             int i,j,k;
             int nquad0 = (*m_exp)[expansion]->GetNumPoints(0);
             int nquad1 = (*m_exp)[expansion]->GetNumPoints(1);
             int nquad2 = (*m_exp)[expansion]->GetNumPoints(2);
             int ntot = nquad0*nquad1*nquad2;
             int ntotminus = (nquad0-1)*(nquad1-1)*(nquad2-1);
 
             Array<OneD,NekDouble> coords[3];
             coords[0] = Array<OneD,NekDouble>(ntot);
             coords[1] = Array<OneD,NekDouble>(ntot);
             coords[2] = Array<OneD,NekDouble>(ntot);
             (*m_exp)[expansion]->GetCoords(coords[0],coords[1],coords[2]);
 
             outfile << "    <Piece NumberOfPoints=\""
                     << ntot << "\" NumberOfCells=\""
                     << ntotminus << "\">" << endl;
             outfile << "      <Points>" << endl;
             outfile << "        <DataArray type=\"Float64\" "
                     << "NumberOfComponents=\"3\" format=\"ascii\">" << endl;
             outfile << "          ";
             for (i = 0; i < ntot; ++i)
             {
                 for (j = 0; j < 3; ++j)
                 {
                     outfile << setprecision(8) << scientific 
                             << (float)coords[j][i] << " ";
                 }
                 outfile << endl;
             }
 
             outfile << endl;
             outfile << "        </DataArray>" << endl;
             outfile << "      </Points>" << endl;
             outfile << "      <Cells>" << endl;
             outfile << "        <DataArray type=\"Int32\" "
                     << "Name=\"connectivity\" format=\"ascii\">" << endl;
             for (i = 0; i < nquad0-1; ++i)
             {
                 for (j = 0; j < nquad1-1; ++j)
                 {
                     for (k = 0; k < nquad2-1; ++k)
                     {
                         outfile << k*nquad0*nquad1 + j*nquad0 + i << " "
                                 << k*nquad0*nquad1 + j*nquad0 + i + 1 << " "
                                 << k*nquad0*nquad1 + (j+1)*nquad0 + i + 1 << " "
                                 << k*nquad0*nquad1 + (j+1)*nquad0 + i << " "
                                 << (k+1)*nquad0*nquad1 + j*nquad0 + i << " "
                                 << (k+1)*nquad0*nquad1 + j*nquad0 + i + 1 << " "
                                 << (k+1)*nquad0*nquad1 + (j+1)*nquad0 + i + 1 << " "
                                 << (k+1)*nquad0*nquad1 + (j+1)*nquad0 + i << " " << endl;
                     }
                 }
             }
             outfile << endl;
             outfile << "        </DataArray>" << endl;
             outfile << "        <DataArray type=\"Int32\" "
                     << "Name=\"offsets\" format=\"ascii\">" << endl;
             for (i = 0; i < ntotminus; ++i)
             {
                 outfile << i*8+8 << " ";
             }
             outfile << endl;
             outfile << "        </DataArray>" << endl;
             outfile << "        <DataArray type=\"UInt8\" "
                     << "Name=\"types\" format=\"ascii\">" << endl;
             for (i = 0; i < ntotminus; ++i)
             {
                 outfile << "12 ";
             }
             outfile << endl;
             outfile << "        </DataArray>" << endl;
             outfile << "      </Cells>" << endl;
             outfile << "      <PointData>" << endl;
         }

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