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

#include <ExpListHomogeneous2D.h>

Inheritance diagram for Nektar::MultiRegions::ExpListHomogeneous2D:

Collaboration diagram for Nektar::MultiRegions::ExpListHomogeneous2D:

Public Member Functions
	ExpListHomogeneous2D ()
	Default constructor. More...

	ExpListHomogeneous2D (const LibUtilities::SessionReaderSharedPtr &pSession, const LibUtilities::BasisKey &HomoBasis_y, const LibUtilities::BasisKey &HomoBasis_z, const NekDouble ly, const NekDouble lz, const bool useFFT, const bool dealiasing)

	ExpListHomogeneous2D (const ExpListHomogeneous2D &In)
	Copy constructor. More...

virtual	~ExpListHomogeneous2D ()
	Destructor. More...

void	Homogeneous2DTrans (const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray, bool IsForwards, CoeffState coeffstate=eLocal, bool Shuff=true, bool UnShuff=true)

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	SetPaddingBase (void)

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

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

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)

Public Attributes
bool	m_useFFT
	FFT variables. More...

LibUtilities::NektarFFTSharedPtr	m_FFT_y

LibUtilities::NektarFFTSharedPtr	m_FFT_z

Array< OneD, NekDouble >	m_tmpIN

Array< OneD, NekDouble >	m_tmpOUT

LibUtilities::TranspositionSharedPtr	m_transposition

LibUtilities::CommSharedPtr	m_Ycomm

LibUtilities::CommSharedPtr	m_Zcomm

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

Protected Member Functions
DNekBlkMatSharedPtr	GenHomogeneous2DBlockMatrix (Homogeneous2DMatType mattype, CoeffState coeffstate=eLocal) const

DNekBlkMatSharedPtr	GetHomogeneous2DBlockMatrix (Homogeneous2DMatType mattype, CoeffState coeffstate=eLocal) const

virtual int	v_GetNumElmts (void)

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_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_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 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_WriteVtkPieceData (std::ostream &outfile, int expansion, std::string var)

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

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 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_SmoothField (Array< OneD, NekDouble > &field)

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

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_SetUpPhysNormals ()

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 void	v_ReadGlobalOptimizationParameters ()

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_WriteVtkPieceHeader (std::ostream &outfile, int expansion, int istrip)

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_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)

virtual void	v_ClearGlobalLinSysManager (void)

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

Protected Attributes
LibUtilities::BasisSharedPtr	m_homogeneousBasis_y
	Definition of the total number of degrees of freedom and quadrature points. Sets up the storage for m_coeff and m_phys. More...

LibUtilities::BasisSharedPtr	m_homogeneousBasis_z
	Base expansion in z direction. More...

LibUtilities::BasisSharedPtr	m_paddingBasis_y
	Base expansion in y direction. More...

LibUtilities::BasisSharedPtr	m_paddingBasis_z
	Base expansion in z direction. More...

NekDouble	m_lhom_y
	Width of homogeneous direction y. More...

NekDouble	m_lhom_z
	Width of homogeneous direction z. More...

Homo2DBlockMatrixMapShPtr	m_homogeneous2DBlockMat

Array< OneD, ExpListSharedPtr >	m_lines
	Vector of ExpList, will be filled with ExpList1D. More...

int	m_ny
	Number of modes = number of poitns in y direction. More...

int	m_nz
	Number of modes = number of poitns in z direction. More...

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...

Private Attributes
bool	m_dealiasing

int	m_padsize_y

int	m_padsize_z

DNekMatSharedPtr	MatFwdPAD

DNekMatSharedPtr	MatBwdPAD

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

Definition at line 81 of file ExpListHomogeneous2D.h.

Constructor & Destructor Documentation

Nektar::MultiRegions::ExpListHomogeneous2D::ExpListHomogeneous2D ( )

Default constructor.

Definition at line 49 of file ExpListHomogeneous2D.cpp.

                                                   :
             ExpList(),
             m_homogeneousBasis_y(LibUtilities::NullBasisSharedPtr),
             m_homogeneousBasis_z(LibUtilities::NullBasisSharedPtr),
             m_lhom_y(1),
             m_lhom_z(1),
             m_homogeneous2DBlockMat(MemoryManager<Homo2DBlockMatrixMap>::AllocateSharedPtr())
         {
         }

Nektar::MultiRegions::ExpListHomogeneous2D::ExpListHomogeneous2D	(	const LibUtilities::SessionReaderSharedPtr &	pSession,
		const LibUtilities::BasisKey &	HomoBasis_y,
		const LibUtilities::BasisKey &	HomoBasis_z,
		const NekDouble	ly,
		const NekDouble	lz,
		const bool	useFFT,
		const bool	dealiasing
	)

Definition at line 59 of file ExpListHomogeneous2D.cpp.

References Nektar::MemoryManager< DataType >::AllocateSharedPtr(), ASSERTL0, ASSERTL2, Nektar::LibUtilities::BasisManager(), Nektar::LibUtilities::NekFactory< tKey, tBase, >::CreateInstance(), Nektar::LibUtilities::GetNektarFFTFactory(), Nektar::MultiRegions::ExpList::m_comm, m_dealiasing, m_FFT_y, m_FFT_z, m_homogeneousBasis_y, m_homogeneousBasis_z, m_lines, m_ny, m_nz, m_transposition, m_useFFT, m_Ycomm, m_Zcomm, Nektar::LibUtilities::NullBasisKey(), and SetPaddingBase().

                                                                          :
             ExpList(pSession),
             m_useFFT(useFFT),
             m_lhom_y(lhom_y),
             m_lhom_z(lhom_z),
             m_homogeneous2DBlockMat(MemoryManager<Homo2DBlockMatrixMap>::AllocateSharedPtr()),
             m_dealiasing(dealiasing)
         {
             ASSERTL2(HomoBasis_y != LibUtilities::NullBasisKey,
                      "Homogeneous Basis in y direction is a null basis");
             ASSERTL2(HomoBasis_z != LibUtilities::NullBasisKey,
                      "Homogeneous Basis in z direction is a null basis");
            
             m_homogeneousBasis_y = LibUtilities::BasisManager()[HomoBasis_y];
             m_homogeneousBasis_z = LibUtilities::BasisManager()[HomoBasis_z];
             
             m_transposition = MemoryManager<LibUtilities::Transposition>::AllocateSharedPtr(HomoBasis_y,HomoBasis_z,m_comm->GetColumnComm());
             
             m_Ycomm = m_comm->GetColumnComm()->GetRowComm();
             m_Zcomm = m_comm->GetColumnComm()->GetRowComm();
 
             m_ny = m_homogeneousBasis_y->GetNumPoints()/m_Ycomm->GetSize();
             m_nz = m_homogeneousBasis_z->GetNumPoints()/m_Zcomm->GetSize();
             
             m_lines = Array<OneD,ExpListSharedPtr>(m_ny*m_nz);
 
             if(m_useFFT)
             {
                 m_FFT_y = LibUtilities::GetNektarFFTFactory().CreateInstance("NekFFTW", m_ny);
                 m_FFT_z = LibUtilities::GetNektarFFTFactory().CreateInstance("NekFFTW", m_nz);
             }
             
             if(m_dealiasing)
             {
                 ASSERTL0(m_comm->GetColumnComm()->GetSize() == 1,"Remove dealiasing if you want to run in parallel");
                 SetPaddingBase();
             }
         }

Nektar::MultiRegions::ExpListHomogeneous2D::ExpListHomogeneous2D ( const ExpListHomogeneous2D & In )

Copy constructor.

Parameters

In	ExpListHomogeneous2D object to copy.

Definition at line 108 of file ExpListHomogeneous2D.cpp.

References m_lines.

                                                                                 :
             ExpList(In,false),
             m_useFFT(In.m_useFFT),
             m_FFT_y(In.m_FFT_y),
             m_FFT_z(In.m_FFT_z),
             m_transposition(In.m_transposition),
             m_Ycomm(In.m_Ycomm),
             m_Zcomm(In.m_Ycomm),
             m_homogeneousBasis_y(In.m_homogeneousBasis_y),
             m_homogeneousBasis_z(In.m_homogeneousBasis_z),
             m_lhom_y(In.m_lhom_y),
             m_lhom_z(In.m_lhom_z),
             m_homogeneous2DBlockMat(In.m_homogeneous2DBlockMat),
             m_ny(In.m_ny),
             m_nz(In.m_nz),
             m_dealiasing(In.m_dealiasing),
             m_padsize_y(In.m_padsize_y),
             m_padsize_z(In.m_padsize_z),
             MatFwdPAD(In.MatFwdPAD),
             MatBwdPAD(In.MatBwdPAD)
         {
             m_lines = Array<OneD, ExpListSharedPtr>(In.m_lines.num_elements());
         }

Nektar::MultiRegions::ExpListHomogeneous2D::~ExpListHomogeneous2D ( )

virtual

Destructor.

Destructor

Definition at line 135 of file ExpListHomogeneous2D.cpp.

136 {

137 }

Member Function Documentation

void Nektar::MultiRegions::ExpListHomogeneous2D::DealiasedProd	(	const Array< OneD, NekDouble > &	inarray1,
		const Array< OneD, NekDouble > &	inarray2,
		Array< OneD, NekDouble > &	outarray,
		CoeffState	coeffstate = `eLocal`
	)

inline

Definition at line 257 of file ExpListHomogeneous2D.h.

References v_DealiasedProd().

         {
             v_DealiasedProd(inarray1,inarray2,outarray,coeffstate);
         }

DNekBlkMatSharedPtr Nektar::MultiRegions::ExpListHomogeneous2D::GenHomogeneous2DBlockMatrix	(	Homogeneous2DMatType	mattype,
		CoeffState	coeffstate = `eLocal`
	)		const

protected

Definition at line 495 of file ExpListHomogeneous2D.cpp.

References Nektar::MemoryManager< DataType >::AllocateSharedPtr(), Nektar::MultiRegions::eBackwardsCoeffSpaceY1D, Nektar::MultiRegions::eBackwardsCoeffSpaceZ1D, Nektar::MultiRegions::eBackwardsPhysSpaceY1D, Nektar::StdRegions::eBwdTrans, Nektar::eDIAGONAL, Nektar::MultiRegions::eForwardsCoeffSpaceY1D, Nektar::MultiRegions::eForwardsCoeffSpaceZ1D, Nektar::MultiRegions::eForwardsPhysSpaceY1D, Nektar::MultiRegions::eForwardsPhysSpaceZ1D, Nektar::StdRegions::eFwdTrans, m_homogeneousBasis_y, m_homogeneousBasis_z, and m_lines.

Referenced by GetHomogeneous2DBlockMatrix().

         {
             int i;
             int n_exp = 0;
             
             DNekMatSharedPtr    loc_mat;
             DNekBlkMatSharedPtr BlkMatrix;
             
             LibUtilities::BasisSharedPtr Basis;
             
             int NumPoints = 0;
             int NumModes = 0;
             int NumPencils = 0;
             
             if((mattype == eForwardsCoeffSpaceY1D) || (mattype == eBackwardsCoeffSpaceY1D)
                ||(mattype == eForwardsPhysSpaceY1D) || (mattype == eBackwardsPhysSpaceY1D))
             {
                 Basis = m_homogeneousBasis_y;
                 NumPoints  = m_homogeneousBasis_y->GetNumModes();
                 NumModes   = m_homogeneousBasis_y->GetNumPoints();
                 NumPencils = m_homogeneousBasis_z->GetNumPoints();
             }
             else 
             {
                 Basis = m_homogeneousBasis_z;
                 NumPoints  = m_homogeneousBasis_z->GetNumModes();
                 NumModes   = m_homogeneousBasis_z->GetNumPoints();
                 NumPencils = m_homogeneousBasis_y->GetNumPoints();
             }
             
             if((mattype == eForwardsCoeffSpaceY1D) || (mattype == eForwardsCoeffSpaceZ1D)
                ||(mattype == eBackwardsCoeffSpaceY1D)||(mattype == eBackwardsCoeffSpaceZ1D))
             {
                 n_exp = m_lines[0]->GetNcoeffs();
             }
             else
             {
                 n_exp = m_lines[0]->GetTotPoints(); // will operatore on m_phys
             }
             
             Array<OneD,unsigned int> nrows(n_exp);
             Array<OneD,unsigned int> ncols(n_exp);
             
             if((mattype == eForwardsCoeffSpaceY1D)||(mattype == eForwardsPhysSpaceY1D) || 
                (mattype == eForwardsCoeffSpaceZ1D)||(mattype == eForwardsPhysSpaceZ1D))
             {
                 nrows = Array<OneD, unsigned int>(n_exp*NumPencils,NumModes);
                 ncols = Array<OneD, unsigned int>(n_exp*NumPencils,NumPoints);
             }
             else
             {
                 nrows = Array<OneD, unsigned int>(n_exp*NumPencils,NumPoints);
                 ncols = Array<OneD, unsigned int>(n_exp*NumPencils,NumModes);
             }
             
             MatrixStorage blkmatStorage = eDIAGONAL;
             BlkMatrix = MemoryManager<DNekBlkMat>::AllocateSharedPtr(nrows,ncols,blkmatStorage);
             
             StdRegions::StdSegExp StdSeg(Basis->GetBasisKey());
             
             if((mattype == eForwardsCoeffSpaceY1D)||(mattype == eForwardsPhysSpaceY1D) || 
                (mattype == eForwardsCoeffSpaceZ1D)||(mattype == eForwardsPhysSpaceZ1D))
             {
                 StdRegions::StdMatrixKey matkey(StdRegions::eFwdTrans,
                                                 StdSeg.DetShapeType(),
                                                 StdSeg);
                 
                 loc_mat = StdSeg.GetStdMatrix(matkey);                
             }
             else
             {
                 StdRegions::StdMatrixKey matkey(StdRegions::eBwdTrans,
                                                 StdSeg.DetShapeType(),
                                                 StdSeg);
                 
                 loc_mat = StdSeg.GetStdMatrix(matkey);
             }
             
             // set up array of block matrices.
             for(i = 0; i < (n_exp*NumPencils); ++i)
             {
                 BlkMatrix->SetBlock(i,i,loc_mat);
             }
             
             return BlkMatrix;
         }

DNekBlkMatSharedPtr Nektar::MultiRegions::ExpListHomogeneous2D::GetHomogeneous2DBlockMatrix	(	Homogeneous2DMatType	mattype,
		CoeffState	coeffstate = `eLocal`
	)		const

protected

Definition at line 480 of file ExpListHomogeneous2D.cpp.

References GenHomogeneous2DBlockMatrix(), Nektar::iterator, and m_homogeneous2DBlockMat.

Referenced by Homogeneous2DTrans().

         {
             Homo2DBlockMatrixMap::iterator matrixIter = m_homogeneous2DBlockMat->find(mattype);
 
             if(matrixIter == m_homogeneous2DBlockMat->end())
             {
                 return ((*m_homogeneous2DBlockMat)[mattype] =
                         GenHomogeneous2DBlockMatrix(mattype,coeffstate));
             }
             else
             {
                 return matrixIter->second;
             }
         }

void Nektar::MultiRegions::ExpListHomogeneous2D::Homogeneous2DTrans	(	const Array< OneD, const NekDouble > &	inarray,
		Array< OneD, NekDouble > &	outarray,
		bool	IsForwards,
		CoeffState	coeffstate = `eLocal`,
		bool	Shuff = `true`,
		bool	UnShuff = `true`
	)

Definition at line 357 of file ExpListHomogeneous2D.cpp.

References Nektar::MultiRegions::eBackwardsCoeffSpaceY1D, Nektar::MultiRegions::eBackwardsCoeffSpaceZ1D, Nektar::MultiRegions::eBackwardsPhysSpaceY1D, Nektar::MultiRegions::eBackwardsPhysSpaceZ1D, Nektar::MultiRegions::eForwardsCoeffSpaceY1D, Nektar::MultiRegions::eForwardsCoeffSpaceZ1D, Nektar::MultiRegions::eForwardsPhysSpaceY1D, Nektar::MultiRegions::eForwardsPhysSpaceZ1D, Nektar::eWrapper, Nektar::LibUtilities::eXtoYZ, Nektar::LibUtilities::eYZtoX, Nektar::LibUtilities::eYZtoZY, Nektar::LibUtilities::eZYtoYZ, GetHomogeneous2DBlockMatrix(), m_FFT_y, m_FFT_z, m_lines, Nektar::MultiRegions::ExpList::m_npoints, m_ny, m_nz, m_tmpIN, m_tmpOUT, m_transposition, and m_useFFT.

Referenced by v_HomogeneousBwdTrans(), and v_HomogeneousFwdTrans().

         {
             if(m_useFFT)
             {
                 
                 int n  = m_lines.num_elements();   //number of Fourier points in the Fourier directions (x-z grid)
                 int s  = inarray.num_elements();   //number of total points = n. of Fourier points * n. of points per line
                 int p  = s/n;                      //number of points per line = n of Fourier transform required
         
                 Array<OneD, NekDouble> fft_in(s);
                 Array<OneD, NekDouble> fft_out(s);
         
                 m_transposition->Transpose(inarray,fft_in,false,LibUtilities::eXtoYZ);
                 
                 if(IsForwards)
                 {
                     for(int i=0;i<(p*m_nz);i++)
                     {
                         m_FFT_y->FFTFwdTrans(m_tmpIN = fft_in + i*m_ny, m_tmpOUT = fft_out + i*m_ny);
                     }
                     
                 }
                 else 
                 {
                     for(int i=0;i<(p*m_nz);i++)
                     {
                         m_FFT_y->FFTBwdTrans(m_tmpIN = fft_in + i*m_ny, m_tmpOUT = fft_out + i*m_ny);
                     }
                 }
         
                 m_transposition->Transpose(fft_out,fft_in,false,LibUtilities::eYZtoZY);
                 
                 if(IsForwards)
                 {
                     for(int i=0;i<(p*m_ny);i++)
                     {
                         m_FFT_z->FFTFwdTrans(m_tmpIN = fft_in + i*m_nz, m_tmpOUT = fft_out + i*m_nz);
                     }
                     
                 }
                 else 
                 {
                     for(int i=0;i<(p*m_ny);i++)
                     {
                         m_FFT_z->FFTBwdTrans(m_tmpIN = fft_in + i*m_nz, m_tmpOUT = fft_out + i*m_nz);
                     }
                 }
         
                 //TODO: required ZYtoX routine
                 m_transposition->Transpose(fft_out,fft_in,false,LibUtilities::eZYtoYZ);
                 
                 m_transposition->Transpose(fft_in,outarray,false,LibUtilities::eYZtoX);
                 
             }
             else 
             {
                 DNekBlkMatSharedPtr blkmatY;
                 DNekBlkMatSharedPtr blkmatZ;
         
                 if(inarray.num_elements() == m_npoints) //transform phys space
                 {
                     if(IsForwards)
                     {
                         blkmatY = GetHomogeneous2DBlockMatrix(eForwardsPhysSpaceY1D);
                         blkmatZ = GetHomogeneous2DBlockMatrix(eForwardsPhysSpaceZ1D);
                     }
                     else
                     {
                         blkmatY = GetHomogeneous2DBlockMatrix(eBackwardsPhysSpaceY1D);
                         blkmatZ = GetHomogeneous2DBlockMatrix(eBackwardsPhysSpaceZ1D);
                     }
                 }
                 else
                 {
                     if(IsForwards)
                     {
                         blkmatY = GetHomogeneous2DBlockMatrix(eForwardsCoeffSpaceY1D,coeffstate);
                         blkmatZ = GetHomogeneous2DBlockMatrix(eForwardsCoeffSpaceZ1D,coeffstate);
                     }
                     else
                     {
                         blkmatY = GetHomogeneous2DBlockMatrix(eBackwardsCoeffSpaceY1D,coeffstate);
                         blkmatZ = GetHomogeneous2DBlockMatrix(eBackwardsCoeffSpaceZ1D,coeffstate);
                     }
                 }
         
                 int nrowsY = blkmatY->GetRows();
                 int ncolsY = blkmatY->GetColumns();
         
                 Array<OneD, NekDouble> sortedinarrayY(ncolsY);
                 Array<OneD, NekDouble> sortedoutarrayY(nrowsY);
         
                 int nrowsZ = blkmatZ->GetRows();
                 int ncolsZ = blkmatZ->GetColumns();
         
                 Array<OneD, NekDouble> sortedinarrayZ(ncolsZ);
                 Array<OneD, NekDouble> sortedoutarrayZ(nrowsZ);
         
                 NekVector<NekDouble> inY (ncolsY,sortedinarrayY,eWrapper);
                 NekVector<NekDouble> outY(nrowsY,sortedoutarrayY,eWrapper);
         
                 NekVector<NekDouble> inZ (ncolsZ,sortedinarrayZ,eWrapper);
                 NekVector<NekDouble> outZ(nrowsZ,sortedoutarrayZ,eWrapper);
         
                 m_transposition->Transpose(inarray,sortedinarrayY,!IsForwards,LibUtilities::eXtoYZ);
                 
                 outY = (*blkmatY)*inY;
         
                 m_transposition->Transpose(sortedoutarrayY,sortedinarrayZ,false,LibUtilities::eYZtoZY);
                 
                 outZ = (*blkmatZ)*inZ;
         
                 m_transposition->Transpose(sortedoutarrayZ,sortedoutarrayY,false,LibUtilities::eZYtoYZ);
         
                 m_transposition->Transpose(sortedoutarrayY,outarray,false,LibUtilities::eYZtoX);
             }
         }

void Nektar::MultiRegions::ExpListHomogeneous2D::HomogeneousBwdTrans	(	const Array< OneD, const NekDouble > &	inarray,
		Array< OneD, NekDouble > &	outarray,
		CoeffState	coeffstate = `eLocal`,
		bool	Shuff = `true`,
		bool	UnShuff = `true`
	)

inline

Definition at line 248 of file ExpListHomogeneous2D.h.

References v_HomogeneousBwdTrans().

Referenced by v_BwdTrans(), v_BwdTrans_IterPerExp(), v_DealiasedProd(), and v_PhysDeriv().

         {
             v_HomogeneousBwdTrans(inarray,outarray,coeffstate,Shuff,UnShuff);
         }

void Nektar::MultiRegions::ExpListHomogeneous2D::HomogeneousFwdTrans	(	const Array< OneD, const NekDouble > &	inarray,
		Array< OneD, NekDouble > &	outarray,
		CoeffState	coeffstate = `eLocal`,
		bool	Shuff = `true`,
		bool	UnShuff = `true`
	)

inline

Definition at line 239 of file ExpListHomogeneous2D.h.

References v_HomogeneousFwdTrans().

Referenced by v_DealiasedProd(), v_FwdTrans(), v_FwdTrans_IterPerExp(), Nektar::MultiRegions::ContField3DHomogeneous2D::v_HelmSolve(), Nektar::MultiRegions::DisContField3DHomogeneous2D::v_HelmSolve(), and v_PhysDeriv().

         {
             v_HomogeneousFwdTrans(inarray,outarray,coeffstate,Shuff,UnShuff);
         }

void Nektar::MultiRegions::ExpListHomogeneous2D::PhysDeriv	(	const Array< OneD, const NekDouble > &	inarray,
		Array< OneD, NekDouble > &	out_d0,
		Array< OneD, NekDouble > &	out_d1,
		Array< OneD, NekDouble > &	out_d2
	)

Definition at line 957 of file ExpListHomogeneous2D.cpp.

References v_PhysDeriv().

         {
             v_PhysDeriv(inarray,out_d0,out_d1,out_d2);
         }

void Nektar::MultiRegions::ExpListHomogeneous2D::PhysDeriv	(	Direction	edir,
		const Array< OneD, const NekDouble > &	inarray,
		Array< OneD, NekDouble > &	out_d
	)

Definition at line 966 of file ExpListHomogeneous2D.cpp.

References v_PhysDeriv().

         {
             //convert int into enum            
             v_PhysDeriv(edir,inarray,out_d);
         }

void Nektar::MultiRegions::ExpListHomogeneous2D::SetPaddingBase ( void )

Definition at line 974 of file ExpListHomogeneous2D.cpp.

References Nektar::LibUtilities::BasisManager(), Nektar::StdRegions::eBwdTrans, Nektar::LibUtilities::eFourier, Nektar::LibUtilities::eFourierEvenlySpaced, Nektar::StdRegions::eFwdTrans, m_ny, m_nz, m_paddingBasis_y, m_paddingBasis_z, m_padsize_y, m_padsize_z, MatBwdPAD, and MatFwdPAD.

Referenced by ExpListHomogeneous2D().

         {
             NekDouble size_y = 1.5*m_ny;
             NekDouble size_z = 1.5*m_nz;
             m_padsize_y = int(size_y);
             m_padsize_z = int(size_z);
             
             const LibUtilities::PointsKey Ppad_y(m_padsize_y,LibUtilities::eFourierEvenlySpaced);
             const LibUtilities::BasisKey  Bpad_y(LibUtilities::eFourier,m_padsize_y,Ppad_y);
             
             const LibUtilities::PointsKey Ppad_z(m_padsize_z,LibUtilities::eFourierEvenlySpaced);
             const LibUtilities::BasisKey  Bpad_z(LibUtilities::eFourier,m_padsize_z,Ppad_z);
             
             m_paddingBasis_y = LibUtilities::BasisManager()[Bpad_y];
             m_paddingBasis_z = LibUtilities::BasisManager()[Bpad_z];
             
             StdRegions::StdQuadExp StdQuad(m_paddingBasis_y->GetBasisKey(),m_paddingBasis_z->GetBasisKey());
             
             StdRegions::StdMatrixKey matkey1(StdRegions::eFwdTrans,StdQuad.DetShapeType(),StdQuad);
             StdRegions::StdMatrixKey matkey2(StdRegions::eBwdTrans,StdQuad.DetShapeType(),StdQuad);
             
             MatFwdPAD = StdQuad.GetStdMatrix(matkey1);
             MatBwdPAD = StdQuad.GetStdMatrix(matkey2);
         }

void Nektar::MultiRegions::ExpListHomogeneous2D::v_AppendFieldData	(	LibUtilities::FieldDefinitionsSharedPtr &	fielddef,
		std::vector< NekDouble > &	fielddata
	)

protectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 681 of file ExpListHomogeneous2D.cpp.

References Nektar::MultiRegions::ExpList::m_coeffs.

         {
             v_AppendFieldData(fielddef,fielddata,m_coeffs);
         }

void Nektar::MultiRegions::ExpListHomogeneous2D::v_AppendFieldData	(	LibUtilities::FieldDefinitionsSharedPtr &	fielddef,
		std::vector< NekDouble > &	fielddata,
		Array< OneD, NekDouble > &	coeffs
	)

protectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 652 of file ExpListHomogeneous2D.cpp.

References Nektar::MultiRegions::ExpList::m_coeff_offset, m_homogeneousBasis_y, m_homogeneousBasis_z, and m_lines.

         {
             int i,k;
             
             int NumMod_y = m_homogeneousBasis_y->GetNumModes();
             int NumMod_z = m_homogeneousBasis_z->GetNumModes();
             
             int ncoeffs_per_line = m_lines[0]->GetNcoeffs();
             
             // Determine mapping from element ids to location in
             // expansion list
             map<int, int> ElmtID_to_ExpID;
             for(i = 0; i < m_lines[0]->GetExpSize(); ++i)
             {
                 ElmtID_to_ExpID[(*m_exp)[i]->GetGeom()->GetGlobalID()] = i;
             }
             
             for(i = 0; i < fielddef->m_elementIDs.size(); ++i)
             {
                 int eid     = ElmtID_to_ExpID[fielddef->m_elementIDs[i]];
                 int datalen = (*m_exp)[eid]->GetNcoeffs();
                 
                 for(k = 0; k < (NumMod_y*NumMod_z); ++k)
                 {
                     fielddata.insert(fielddata.end(),&coeffs[m_coeff_offset[eid]+k*ncoeffs_per_line],&coeffs[m_coeff_offset[eid]+k*ncoeffs_per_line]+datalen);
                 }
             }
         }

void Nektar::MultiRegions::ExpListHomogeneous2D::v_BwdTrans	(	const Array< OneD, const NekDouble > &	inarray,
		Array< OneD, NekDouble > &	outarray,
		CoeffState	coeffstate
	)

protectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 288 of file ExpListHomogeneous2D.cpp.

References HomogeneousBwdTrans(), m_lines, and Nektar::MultiRegions::ExpList::m_WaveSpace.

         {
             int cnt = 0, cnt1 = 0;
             Array<OneD, NekDouble> tmparray;
             int nlines = m_lines.num_elements();
 
             for(int n = 0; n < nlines; ++n)
             {
                 m_lines[n]->BwdTrans(inarray+cnt, tmparray = outarray + cnt1,
                                      coeffstate);
                 cnt    += m_lines[n]->GetNcoeffs();
                 cnt1   += m_lines[n]->GetTotPoints();
             }
             if(!m_WaveSpace)
             {
                 HomogeneousBwdTrans(outarray,outarray);
             }
         }

void Nektar::MultiRegions::ExpListHomogeneous2D::v_BwdTrans_IterPerExp	(	const Array< OneD, const NekDouble > &	inarray,
		Array< OneD, NekDouble > &	outarray
	)

protectedvirtual

Given the elemental coefficients $\hat{u}_n^e$ of an expansion, this function evaluates the spectral/hp expansion $u^{\delta}(\boldsymbol{x})$ at the quadrature points $\boldsymbol{x}_i$ . The operation is evaluated locally by the elemental function StdRegions::StdExpansion::BwdTrans.

Parameters

inarray	An array of size $N_{\mathrm{eof}}$ containing the local coefficients $\hat{u}_n^e$ .
outarray	The resulting physical values at the quadrature points $u^{\delta}(\boldsymbol{x}_i)$ will be stored in this array of size $Q_{\mathrm{tot}}$ .

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 307 of file ExpListHomogeneous2D.cpp.

References HomogeneousBwdTrans(), m_lines, and Nektar::MultiRegions::ExpList::m_WaveSpace.

         {
             int cnt = 0, cnt1 = 0;
             Array<OneD, NekDouble> tmparray;
             int nlines = m_lines.num_elements();
             
             for(int n = 0; n < nlines; ++n)
             {
                 m_lines[n]->BwdTrans_IterPerExp(inarray+cnt, tmparray = outarray + cnt1);
 
                 cnt    += m_lines[n]->GetNcoeffs();
                 cnt1   += m_lines[n]->GetTotPoints();
             }
             if(!m_WaveSpace)
             {
                 HomogeneousBwdTrans(outarray,outarray);
             }
         }

void Nektar::MultiRegions::ExpListHomogeneous2D::v_DealiasedProd	(	const Array< OneD, NekDouble > &	inarray1,
		const Array< OneD, NekDouble > &	inarray2,
		Array< OneD, NekDouble > &	outarray,
		CoeffState	coeffstate = `eLocal`
	)

protectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 159 of file ExpListHomogeneous2D.cpp.

References Nektar::eWrapper, Nektar::LibUtilities::eXtoYZ, Nektar::LibUtilities::eYZtoX, HomogeneousBwdTrans(), HomogeneousFwdTrans(), m_lines, m_ny, m_nz, m_padsize_y, m_padsize_z, m_transposition, Nektar::MultiRegions::ExpList::m_WaveSpace, Vmath::Vcopy(), and Vmath::Vmul().

Referenced by DealiasedProd().

         {
             int npoints = outarray.num_elements(); // number of total physical points
             int nlines  = m_lines.num_elements();  // number of lines == number of Fourier modes = number of Fourier coeff = number of points per slab
             int nslabs  = npoints/nlines;          // number of slabs = numebr of physical points per line
             
             Array<OneD, NekDouble> V1(npoints);
             Array<OneD, NekDouble> V2(npoints);
             Array<OneD, NekDouble> V1V2(npoints);
             Array<OneD, NekDouble> ShufV1(npoints);
             Array<OneD, NekDouble> ShufV2(npoints);
             Array<OneD, NekDouble> ShufV1V2(npoints);
             
             if(m_WaveSpace)
             {
                 V1 = inarray1;
                 V2 = inarray2;
             }
             else 
             {
                 HomogeneousFwdTrans(inarray1,V1,coeffstate);
                 HomogeneousFwdTrans(inarray2,V2,coeffstate);
             }
             
             m_transposition->Transpose(V1,ShufV1,false,LibUtilities::eXtoYZ);
             m_transposition->Transpose(V2,ShufV2,false,LibUtilities::eXtoYZ);
             
             Array<OneD, NekDouble> PadV1_slab_coeff(m_padsize_y*m_padsize_z,0.0);
             Array<OneD, NekDouble> PadV2_slab_coeff(m_padsize_y*m_padsize_z,0.0);
             Array<OneD, NekDouble> PadRe_slab_coeff(m_padsize_y*m_padsize_z,0.0);
             
             Array<OneD, NekDouble> PadV1_slab_phys(m_padsize_y*m_padsize_z,0.0);
             Array<OneD, NekDouble> PadV2_slab_phys(m_padsize_y*m_padsize_z,0.0);
             Array<OneD, NekDouble> PadRe_slab_phys(m_padsize_y*m_padsize_z,0.0);
             
             NekVector<NekDouble> PadIN_V1(m_padsize_y*m_padsize_z,PadV1_slab_coeff,eWrapper);
             NekVector<NekDouble> PadOUT_V1(m_padsize_y*m_padsize_z,PadV1_slab_phys,eWrapper);
             
             NekVector<NekDouble> PadIN_V2(m_padsize_y*m_padsize_z,PadV2_slab_coeff,eWrapper);
             NekVector<NekDouble> PadOUT_V2(m_padsize_y*m_padsize_z,PadV2_slab_phys,eWrapper);
             
             NekVector<NekDouble> PadIN_Re(m_padsize_y*m_padsize_z,PadRe_slab_phys,eWrapper);
             NekVector<NekDouble> PadOUT_Re(m_padsize_y*m_padsize_z,PadRe_slab_coeff,eWrapper);
             
             //Looping on the slabs
             for(int j = 0 ; j< nslabs ; j++)
             {
                 //Copying the j-th slab of size N*M into a bigger slab of lenght 2*N*M
                 //We are in Fourier space
                 for(int i = 0 ; i< m_nz ; i++)
                 {
                     Vmath::Vcopy(m_ny,&(ShufV1[i*m_ny + j*nlines]),1,&(PadV1_slab_coeff[i*2*m_ny]),1);
                     Vmath::Vcopy(m_ny,&(ShufV2[i*m_ny + j*nlines]),1,&(PadV2_slab_coeff[i*2*m_ny]),1);
                 }
         
                 //Moving to physical space using the padded system
                 PadOUT_V1 = (*MatBwdPAD)*PadIN_V1;
                 PadOUT_V2 = (*MatBwdPAD)*PadIN_V2;
         
                 //Perfroming the vectors multiplication in physical
                 //space on the padded system
                 Vmath::Vmul(m_padsize_y*m_padsize_z,PadV1_slab_phys,1,PadV2_slab_phys,1,PadRe_slab_phys,1);
         
                 //Moving back the result (V1*V2)_phys in Fourier
                 //space, padded system
                 PadOUT_Re = (*MatFwdPAD)*PadIN_Re;
         
                 //Copying the first half of the padded pencil in the
                 //full vector (Fourier space)
                 for (int i = 0; i < m_nz; i++) 
                 {
                     Vmath::Vcopy(m_ny,&(PadRe_slab_coeff[i*2*m_ny]),1,&(ShufV1V2[i*m_ny + j*nlines]),1);
                 }
             }
             
             if(m_WaveSpace)
             {
                 m_transposition->Transpose(ShufV1V2,outarray,false,LibUtilities::eYZtoX);
             }
             else 
             {
                 m_transposition->Transpose(ShufV1V2,V1V2,false,LibUtilities::eYZtoX);
                 
                 //Moving the results in physical space for the output
                 HomogeneousBwdTrans(V1V2,outarray,coeffstate);
             }
         }

void Nektar::MultiRegions::ExpListHomogeneous2D::v_ExtractDataToCoeffs	(	LibUtilities::FieldDefinitionsSharedPtr &	fielddef,
		std::vector< NekDouble > &	fielddata,
		std::string &	field,
		Array< OneD, NekDouble > &	coeffs
	)

protectedvirtual

Extract data from raw field data into expansion list.

Parameters

fielddef	Field definitions.
fielddata	Data for associated field.
field	Field variable name.
coeffs	Resulting coefficient array.

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 687 of file ExpListHomogeneous2D.cpp.

References ASSERTL0, Nektar::MultiRegions::ExpList::m_coeff_offset, m_homogeneousBasis_y, m_homogeneousBasis_z, m_lines, and Vmath::Vcopy().

         {
             int i,k;
             int offset = 0;
             int datalen = fielddata.size()/fielddef->m_fields.size();
             int ncoeffs_per_line = m_lines[0]->GetNcoeffs();
             int NumMod_y = m_homogeneousBasis_y->GetNumModes();
             int NumMod_z = m_homogeneousBasis_z->GetNumModes();
             
             // Find data location according to field definition
             for(i = 0; i < fielddef->m_fields.size(); ++i)
             {
                 if(fielddef->m_fields[i] == field)
                 {
                     break;
                 }
                 offset += datalen;
             }
             
             ASSERTL0(i!= fielddef->m_fields.size(),"Field not found in data file");
 
             // Determine mapping from element ids to location in
             // expansion list
             map<int, int> ElmtID_to_ExpID;
             for(i = 0; i < m_lines[0]->GetExpSize(); ++i)
             {
                 ElmtID_to_ExpID[(*m_exp)[i]->GetGeom()->GetGlobalID()] = i;
             }
 
             for(i = 0; i < fielddef->m_elementIDs.size(); ++i)
             {
                 int eid = ElmtID_to_ExpID[fielddef->m_elementIDs[i]];
                 int datalen = (*m_exp)[eid]->GetNcoeffs();
                 
                 for(k = 0; k < (NumMod_y*NumMod_z); ++k)
                 {
                     Vmath::Vcopy(datalen,&fielddata[offset],1,&coeffs[m_coeff_offset[eid] + k*ncoeffs_per_line],1);
                     offset += datalen;
                 }
             }
         }

void Nektar::MultiRegions::ExpListHomogeneous2D::v_FwdTrans	(	const Array< OneD, const NekDouble > &	inarray,
		Array< OneD, NekDouble > &	outarray,
		CoeffState	coeffstate
	)

protectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 250 of file ExpListHomogeneous2D.cpp.

References HomogeneousFwdTrans(), m_lines, and Nektar::MultiRegions::ExpList::m_WaveSpace.

         {
             int cnt = 0, cnt1 = 0;
             Array<OneD, NekDouble> tmparray;
             int nlines = m_lines.num_elements();
 
             for(int n = 0; n < nlines; ++n)
             {
                 m_lines[n]->FwdTrans(inarray+cnt, tmparray = outarray + cnt1,
                                      coeffstate);
                 cnt   += m_lines[n]->GetTotPoints();
                 cnt1  += m_lines[n]->GetNcoeffs();
             }
             if(!m_WaveSpace)
             {
                 HomogeneousFwdTrans(outarray,outarray,coeffstate);
             }
         }

void Nektar::MultiRegions::ExpListHomogeneous2D::v_FwdTrans_IterPerExp	(	const Array< OneD, const NekDouble > &	inarray,
		Array< OneD, NekDouble > &	outarray
	)

protectedvirtual

Given a function $u(\boldsymbol{x})$ defined at the quadrature points, this function determines the transformed elemental coefficients $\hat{u}_n^e$ employing a discrete elemental Galerkin projection from physical space to coefficient space. For each element, the operation is evaluated locally by the function StdRegions::StdExpansion::IproductWRTBase followed by a call to #MultiRegions#MultiplyByElmtInvMass.

Parameters

inarray	An array of size $Q_{\mathrm{tot}}$ containing the values of the function $f(\boldsymbol{x})$ at the quadrature points $\boldsymbol{x}_i$ .
outarray	The resulting coefficients $\hat{u}_n^e$ will be stored in this array of size $N_{\mathrm{eof}}$ .

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 269 of file ExpListHomogeneous2D.cpp.

References HomogeneousFwdTrans(), m_lines, and Nektar::MultiRegions::ExpList::m_WaveSpace.

         {
             int cnt = 0, cnt1 = 0;
             Array<OneD, NekDouble> tmparray;
             int nlines = m_lines.num_elements();
             
             for(int n = 0; n < nlines; ++n)
             {
                 m_lines[n]->FwdTrans_IterPerExp(inarray+cnt, tmparray = outarray + cnt1);
                 
                 cnt   += m_lines[n]->GetTotPoints();
                 cnt1  += m_lines[n]->GetNcoeffs();
             }
             if(!m_WaveSpace)
             {
                 HomogeneousFwdTrans(outarray,outarray);
             }
         }

std::vector< LibUtilities::FieldDefinitionsSharedPtr > Nektar::MultiRegions::ExpListHomogeneous2D::v_GetFieldDefinitions ( void )

protectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 582 of file ExpListHomogeneous2D.cpp.

References m_homogeneousBasis_y, m_homogeneousBasis_z, m_lhom_y, m_lhom_z, m_lines, and Nektar::LibUtilities::NullUnsignedIntVector.

         {
             std::vector<LibUtilities::FieldDefinitionsSharedPtr> returnval;
             // Set up Homogeneous length details.
             Array<OneD,LibUtilities::BasisSharedPtr> HomoBasis(2);
             HomoBasis[0] = m_homogeneousBasis_y;
             HomoBasis[1] = m_homogeneousBasis_z;
             
             std::vector<NekDouble> HomoLen(2);
             HomoLen[0] = m_lhom_y;
             HomoLen[1] = m_lhom_z;
             
             int nhom_modes_y = m_homogeneousBasis_y->GetNumModes();
             int nhom_modes_z = m_homogeneousBasis_z->GetNumModes();
 
             std::vector<unsigned int> sIDs
                 = LibUtilities::NullUnsignedIntVector;
  
             std::vector<unsigned int> yIDs;
             std::vector<unsigned int> zIDs;
             
             for(int n = 0; n < nhom_modes_z; ++n)
             {
                 for(int m = 0; m < nhom_modes_y; ++m)
                 {
                     zIDs.push_back(n);
                     yIDs.push_back(m);
                 }
             }
 
             m_lines[0]->GeneralGetFieldDefinitions(returnval, 2, HomoBasis, 
                                                      HomoLen, false, 
                                                      sIDs, zIDs, yIDs);
             return returnval;
         }

void Nektar::MultiRegions::ExpListHomogeneous2D::v_GetFieldDefinitions ( std::vector< LibUtilities::FieldDefinitionsSharedPtr > & fielddef )

protectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 618 of file ExpListHomogeneous2D.cpp.

References m_homogeneousBasis_y, m_homogeneousBasis_z, m_lhom_y, m_lhom_z, m_lines, and Nektar::LibUtilities::NullUnsignedIntVector.

         {
             // Set up Homogeneous length details.
             Array<OneD,LibUtilities::BasisSharedPtr> HomoBasis(2);
             HomoBasis[0] = m_homogeneousBasis_y;
             HomoBasis[1] = m_homogeneousBasis_z;
             std::vector<NekDouble> HomoLen(2);
             HomoLen[0] = m_lhom_y;
             HomoLen[1] = m_lhom_z;
             
             int nhom_modes_y = m_homogeneousBasis_y->GetNumModes();
             int nhom_modes_z = m_homogeneousBasis_z->GetNumModes();
 
             std::vector<unsigned int> sIDs
                 =LibUtilities::NullUnsignedIntVector;
 
             std::vector<unsigned int> yIDs;
             std::vector<unsigned int> zIDs;
             
             for(int n = 0; n < nhom_modes_z; ++n)
             {
                 for(int m = 0; m < nhom_modes_y; ++m)
                 {
                     zIDs.push_back(n);
                     yIDs.push_back(m);
                 }
             }
             
             // enforce NumHomoDir == 1 by direct call
              m_lines[0]->GeneralGetFieldDefinitions(fielddef, 2, HomoBasis, 
                                                     HomoLen, false,
                                                     sIDs, zIDs, yIDs);
         }

virtual int Nektar::MultiRegions::ExpListHomogeneous2D::v_GetNumElmts ( void )

inlineprotectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 168 of file ExpListHomogeneous2D.h.

             {
                 return m_lines[0]->GetExpSize();
             }

void Nektar::MultiRegions::ExpListHomogeneous2D::v_HomogeneousBwdTrans	(	const Array< OneD, const NekDouble > &	inarray,
		Array< OneD, NekDouble > &	outarray,
		CoeffState	coeffstate = `eLocal`,
		bool	Shuff = `true`,
		bool	UnShuff = `true`
	)

protectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 149 of file ExpListHomogeneous2D.cpp.

References Homogeneous2DTrans().

Referenced by HomogeneousBwdTrans().

         {
             // Backwards trans
             Homogeneous2DTrans(inarray,outarray,false,coeffstate,Shuff,UnShuff);
         }

void Nektar::MultiRegions::ExpListHomogeneous2D::v_HomogeneousFwdTrans	(	const Array< OneD, const NekDouble > &	inarray,
		Array< OneD, NekDouble > &	outarray,
		CoeffState	coeffstate = `eLocal`,
		bool	Shuff = `true`,
		bool	UnShuff = `true`
	)

protectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 139 of file ExpListHomogeneous2D.cpp.

References Homogeneous2DTrans().

Referenced by HomogeneousFwdTrans().

         {
             // Forwards trans
             Homogeneous2DTrans(inarray,outarray,true,coeffstate,Shuff,UnShuff);
         }

void Nektar::MultiRegions::ExpListHomogeneous2D::v_IProductWRTBase	(	const Array< OneD, const NekDouble > &	inarray,
		Array< OneD, NekDouble > &	outarray,
		CoeffState	coeffstate
	)

protectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 327 of file ExpListHomogeneous2D.cpp.

References m_lines.

         {
             int cnt = 0, cnt1 = 0;
             Array<OneD, NekDouble> tmparray;
             int nlines = m_lines.num_elements();
             
             for(int n = 0; n < nlines; ++n)
             {
                 m_lines[n]->IProductWRTBase(inarray+cnt, tmparray = outarray + cnt1,coeffstate);
 
                 cnt    += m_lines[n]->GetNcoeffs();
                 cnt1   += m_lines[n]->GetTotPoints();
             }
         }

void Nektar::MultiRegions::ExpListHomogeneous2D::v_IProductWRTBase_IterPerExp	(	const Array< OneD, const NekDouble > &	inarray,
		Array< OneD, NekDouble > &	outarray
	)

protectedvirtual

The operation is evaluated locally for every element by the function StdRegions::StdExpansion::IProductWRTBase.

Parameters

inarray	An array of size $Q_{\mathrm{tot}}$ containing the values of the function $f(\boldsymbol{x})$ at the quadrature points $\boldsymbol{x}_i$ .
outarray	An array of size $N_{\mathrm{eof}}$ used to store the result.

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 342 of file ExpListHomogeneous2D.cpp.

References m_lines.

         {
             int cnt = 0, cnt1 = 0;
             Array<OneD, NekDouble> tmparray;
             int nlines = m_lines.num_elements();
             
             for(int n = 0; n < nlines; ++n)
             {
                 m_lines[n]->IProductWRTBase_IterPerExp(inarray+cnt, tmparray = outarray + cnt1);
         
                 cnt    += m_lines[n]->GetNcoeffs();
                 cnt1   += m_lines[n]->GetTotPoints();
             }
         }

void Nektar::MultiRegions::ExpListHomogeneous2D::v_PhysDeriv	(	const Array< OneD, const NekDouble > &	inarray,
		Array< OneD, NekDouble > &	out_d0,
		Array< OneD, NekDouble > &	out_d1,
		Array< OneD, NekDouble > &	out_d2
	)

protectedvirtual

Given a function $f(\boldsymbol{x})$ evaluated at the quadrature points, this function calculates the derivatives $\frac{d}{dx_1}$ , $\frac{d}{dx_2}$ and $\frac{d}{dx_3}$ of the function $f(\boldsymbol{x})$ at the same quadrature points. The local distribution of the quadrature points allows an elemental evaluation of the derivative. This is done by a call to the function StdRegions::StdExpansion::PhysDeriv.

Parameters

inarray	An array of size $Q_{\mathrm{tot}}$ containing the values of the function $f(\boldsymbol{x})$ at the quadrature points $\boldsymbol{x}_i$ .
out_d0	The discrete evaluation of the derivative $\frac{d}{dx_1}$ will be stored in this array of size $Q_{\mathrm{tot}}$ .
out_d1	The discrete evaluation of the derivative $\frac{d}{dx_2}$ will be stored in this array of size $Q_{\mathrm{tot}}$ . Note that if no memory is allocated for out_d1, the derivative $\frac{d}{dx_2}$ will not be calculated.
out_d2	The discrete evaluation of the derivative $\frac{d}{dx_3}$ will be stored in this array of size $Q_{\mathrm{tot}}$ . Note that if no memory is allocated for out_d2, the derivative $\frac{d}{dx_3}$ will not be calculated.

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 752 of file ExpListHomogeneous2D.cpp.

References ASSERTL0, Nektar::LibUtilities::eFourier, Nektar::LibUtilities::eXtoYZ, Nektar::LibUtilities::eYZtoX, HomogeneousBwdTrans(), HomogeneousFwdTrans(), m_homogeneousBasis_y, m_homogeneousBasis_z, m_lhom_y, m_lhom_z, m_lines, m_ny, m_nz, m_transposition, Nektar::MultiRegions::ExpList::m_WaveSpace, sign, and Vmath::Smul().

Referenced by PhysDeriv().

         {
             int nyzlines      = m_lines.num_elements();   //number of Fourier points in the Fourier directions (nF_pts)
             int npoints       = inarray.num_elements();   //number of total points = n. of Fourier points * n. of points per line (nT_pts)
             int n_points_line = npoints/nyzlines;         //number of points per line 
             
             Array<OneD, NekDouble> temparray(npoints);
             Array<OneD, NekDouble> temparray1(npoints);
             Array<OneD, NekDouble> temparray2(npoints);
             Array<OneD, NekDouble> tmp1;
             Array<OneD, NekDouble> tmp2;
             Array<OneD, NekDouble> tmp3;
             
             for( int i=0 ; i<nyzlines ; i++ )
             {
                 m_lines[i]->PhysDeriv( tmp1 = inarray + i*n_points_line ,tmp2 = out_d0 + i*n_points_line);
             }
             
             if(m_homogeneousBasis_y->GetBasisType() == LibUtilities::eFourier && m_homogeneousBasis_z->GetBasisType() == LibUtilities::eFourier)
             {
                 if(m_WaveSpace)
                 {
                     temparray = inarray;
                 }
                 else 
                 { 
                     HomogeneousFwdTrans(inarray,temparray);
                 }
                 NekDouble sign = -1.0;
                 NekDouble beta;
         
                 //along y
                 for(int i = 0; i < m_ny; i++)
                 {
                     beta = -sign*2*M_PI*(i/2)/m_lhom_y;
                     
                     for(int j = 0; j < m_nz; j++)
                     {
                         Vmath::Smul(n_points_line,beta,tmp1 = temparray + n_points_line*(i+j*m_ny),1, tmp2 = temparray1 + n_points_line*((i-int(sign))+j*m_ny),1);
                     }
                     
                     sign = -1.0*sign;
                 }
         
                 //along z
                 sign = -1.0;
                 for(int i = 0; i < m_nz; i++)
                 {
                     beta = -sign*2*M_PI*(i/2)/m_lhom_z;
                     Vmath::Smul(m_ny*n_points_line,beta,tmp1 = temparray + i*m_ny*n_points_line,1,tmp2 = temparray2 + (i-int(sign))*m_ny*n_points_line,1);
                     sign = -1.0*sign;
                 }
                 if(m_WaveSpace)
                 {
                     out_d1 = temparray1;
                     out_d2 = temparray2;
                 }
                 else 
                 {
                     HomogeneousBwdTrans(temparray1,out_d1);
                     HomogeneousBwdTrans(temparray2,out_d2);
                 }
             }
             else 
             {
                 if(m_WaveSpace)
                 {
                     ASSERTL0(false,"Semi-phyisical time-stepping not implemented yet for non-Fourier basis")
                         }
                 else 
                 {
                     StdRegions::StdQuadExp StdQuad(m_homogeneousBasis_y->GetBasisKey(),m_homogeneousBasis_z->GetBasisKey());
                     
                     m_transposition->Transpose(inarray,temparray,false,LibUtilities::eXtoYZ);
                     
                     for(int i = 0; i < n_points_line; i++)
                     {
                         StdQuad.PhysDeriv(tmp1 = temparray + i*nyzlines, tmp2 = temparray1 + i*nyzlines, tmp3 = temparray2 + i*nyzlines);
                     }
                     
                     m_transposition->Transpose(temparray1,out_d1,false,LibUtilities::eYZtoX);
                     m_transposition->Transpose(temparray2,out_d2,false,LibUtilities::eYZtoX);
                     Vmath::Smul(npoints,2.0/m_lhom_y,out_d1,1,out_d1,1);
                     Vmath::Smul(npoints,2.0/m_lhom_z,out_d2,1,out_d2,1);
                 }
             }
         }

void Nektar::MultiRegions::ExpListHomogeneous2D::v_PhysDeriv	(	Direction	edir,
		const Array< OneD, const NekDouble > &	inarray,
		Array< OneD, NekDouble > &	out_d
	)

protectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 844 of file ExpListHomogeneous2D.cpp.

References ASSERTL0, Nektar::LibUtilities::eFourier, Nektar::LibUtilities::eXtoYZ, Nektar::LibUtilities::eYZtoX, HomogeneousBwdTrans(), HomogeneousFwdTrans(), m_homogeneousBasis_y, m_homogeneousBasis_z, m_lhom_y, m_lhom_z, m_lines, m_ny, m_nz, m_transposition, Nektar::MultiRegions::ExpList::m_WaveSpace, sign, and Vmath::Smul().

         {
             int nyzlines      = m_lines.num_elements();   //number of Fourier points in the Fourier directions (nF_pts)
             int npoints       = inarray.num_elements();   //number of total points = n. of Fourier points * n. of points per line (nT_pts)
             int n_points_line = npoints/nyzlines;         //number of points per line 
             //convert enum into int
             int dir = (int)edir;
             
             Array<OneD, NekDouble> temparray(npoints);
             Array<OneD, NekDouble> temparray1(npoints);
             Array<OneD, NekDouble> temparray2(npoints);
             Array<OneD, NekDouble> tmp1;
             Array<OneD, NekDouble> tmp2;
             Array<OneD, NekDouble> tmp3;
             
             if (dir < 1)
             {
                 for( int i=0 ; i<nyzlines ; i++)
                 {
                     m_lines[i]->PhysDeriv( tmp1 = inarray + i*n_points_line ,tmp2 = out_d + i*n_points_line);
                 }
             }
             else
             {
                 if(m_homogeneousBasis_y->GetBasisType() == LibUtilities::eFourier && m_homogeneousBasis_z->GetBasisType() == LibUtilities::eFourier)
                 {
                     if(m_WaveSpace)
                     {
                         temparray = inarray;
                     }
                     else 
                     { 
                         HomogeneousFwdTrans(inarray,temparray);
                     }
                     NekDouble sign = -1.0;
                     NekDouble beta;
                     
                     if (dir == 1)
                     {
                         //along y
                         for(int i = 0; i < m_ny; i++)
                         {
                             beta = -sign*2*M_PI*(i/2)/m_lhom_y;
                             
                             for(int j = 0; j < m_nz; j++)
                             {
                                 Vmath::Smul(n_points_line,beta,tmp1 = temparray + n_points_line*(i+j*m_ny),1, tmp2 = temparray1 + n_points_line*((i-int(sign))+j*m_ny),1);
                             }
                             sign = -1.0*sign;
                         }
                         if(m_WaveSpace)
                         {
                             out_d = temparray1;
                         }
                         else 
                         {
                             HomogeneousBwdTrans(temparray1,out_d);
                         }
                     }
                     else 
                     {
                         //along z
                         for(int i = 0; i < m_nz; i++)
                         {
                             beta = -sign*2*M_PI*(i/2)/m_lhom_z;
                             Vmath::Smul(m_ny*n_points_line,beta,tmp1 = temparray + i*m_ny*n_points_line,1,tmp2 = temparray2 + (i-int(sign))*m_ny*n_points_line,1);
                             sign = -1.0*sign;
                         }
                         if(m_WaveSpace)
                         {
                                                     out_d = temparray2;
                         }
                         else 
                         {
                             HomogeneousBwdTrans(temparray2,out_d);
                         }
                     }
                 }
                 else 
                 {
                     if(m_WaveSpace)
                     {
                         ASSERTL0(false,"Semi-phyisical time-stepping not implemented yet for non-Fourier basis")
                             }
                     else 
                     {
                         StdRegions::StdQuadExp StdQuad(m_homogeneousBasis_y->GetBasisKey(),m_homogeneousBasis_z->GetBasisKey());
             
                         m_transposition->Transpose(inarray,temparray,false,LibUtilities::eXtoYZ);
                         
                         for(int i = 0; i < n_points_line; i++)
                         {
                             StdQuad.PhysDeriv(tmp1 = temparray + i*nyzlines, tmp2 = temparray1 + i*nyzlines, tmp3 = temparray2 + i*nyzlines);
                         }
             
                         if (dir == 1)
                         {
                             m_transposition->Transpose(temparray1,out_d,false,LibUtilities::eYZtoX);
                             Vmath::Smul(npoints,2.0/m_lhom_y,out_d,1,out_d,1);
                         }
                         else 
                         {
                             m_transposition->Transpose(temparray2,out_d,false,LibUtilities::eYZtoX);
                             Vmath::Smul(npoints,2.0/m_lhom_z,out_d,1,out_d,1);
                         }
                     }
                 }
             }
         }

void Nektar::MultiRegions::ExpListHomogeneous2D::v_WriteVtkPieceData	(	std::ostream &	outfile,
		int	expansion,
		std::string	var
	)

protectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 729 of file ExpListHomogeneous2D.cpp.

References Nektar::NekConstants::kNekZeroTol, m_lines, Nektar::MultiRegions::ExpList::m_phys, and Nektar::MultiRegions::ExpList::m_phys_offset.

         {
             int i;
             int nq = (*m_exp)[expansion]->GetTotPoints();
             int npoints_per_line = m_lines[0]->GetTotPoints();
 
             // printing the fields of that zone
             outfile << "        <DataArray type=\"Float64\" Name=\""
                     << var << "\">" << endl;
             outfile << "          ";
             for (int n = 0; n < m_lines.num_elements(); ++n)
             {
                 const Array<OneD, NekDouble> phys = m_phys + m_phys_offset[expansion] + n*npoints_per_line;
                 for(i = 0; i < nq; ++i)
                 {
                     outfile << (fabs(phys[i]) < NekConstants::kNekZeroTol ? 0 : phys[i]) << " ";
                 }
             }
             outfile << endl;
             outfile << "        </DataArray>" << endl;
         }