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

#include <ExpListHomogeneous1D.h>

Inheritance diagram for Nektar::MultiRegions::ExpListHomogeneous1D:

Collaboration diagram for Nektar::MultiRegions::ExpListHomogeneous1D:

Public Member Functions
	ExpListHomogeneous1D ()
	Default constructor. More...

	ExpListHomogeneous1D (const LibUtilities::SessionReaderSharedPtr &pSession, const LibUtilities::BasisKey &HomoBasis, const NekDouble lz, const bool useFFT, const bool dealiasing)

	ExpListHomogeneous1D (const ExpListHomogeneous1D &In)
	Copy constructor. More...

virtual	~ExpListHomogeneous1D ()
	Destructor. More...

void	Homogeneous1DTrans (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)

LibUtilities::BasisSharedPtr	GetHomogeneousBasis (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)

ExpListSharedPtr &	GetPlane (int n)

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 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	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)

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	GeneralGetFieldDefinitions (std::vector< LibUtilities::FieldDefinitionsSharedPtr > &fielddef, int NumHomoDir=0, int NumHomoStrip=1, Array< OneD, LibUtilities::BasisSharedPtr > &HomoBasis=LibUtilities::NullBasisSharedPtr1DArray, std::vector< NekDouble > &HomoLen=LibUtilities::NullNekDoubleVector, std::vector< unsigned int > &HomoZIDs=LibUtilities::NullUnsignedIntVector, std::vector< unsigned int > &HomoYIDs=LibUtilities::NullUnsignedIntVector)

const NekOptimize::GlobalOptParamSharedPtr &	GetGlobalOptParam (void)

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...

Public Attributes
LibUtilities::TranspositionSharedPtr	m_transposition

LibUtilities::CommSharedPtr	m_StripZcomm

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

Protected Member Functions
DNekBlkMatSharedPtr	GenHomogeneous1DBlockMatrix (Homogeneous1DMatType mattype, CoeffState coeffstate=eLocal) const

DNekBlkMatSharedPtr	GetHomogeneous1DBlockMatrix (Homogeneous1DMatType mattype, CoeffState coeffstate=eLocal) const

NekDouble	GetSpecVanVisc (const int k)

virtual void	v_SetHomo1DSpecVanVisc (Array< OneD, NekDouble > visc)

virtual int	v_GetNumElmts (void)

virtual LibUtilities::BasisSharedPtr	v_GetHomogeneousBasis (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_ExtractCoeffsToCoeffs (const boost::shared_ptr< ExpList > &fromExpList, const Array< OneD, const NekDouble > &fromCoeffs, Array< OneD, NekDouble > &toCoeffs)

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

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_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)

virtual LibUtilities::TranspositionSharedPtr	v_GetTransposition (void)

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

virtual ExpListSharedPtr &	v_GetPlane (int n)

virtual NekDouble	v_GetHomoLen (void)

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 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_SetUpPhysNormals ()

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

virtual void	v_ReadGlobalOptimizationParameters ()

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

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

Protected Attributes
bool	m_useFFT
	FFT variables. More...

LibUtilities::NektarFFTSharedPtr	m_FFT

LibUtilities::NektarFFTSharedPtr	m_FFT_deal

Array< OneD, NekDouble >	m_tmpIN

Array< OneD, NekDouble >	m_tmpOUT

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

NekDouble	m_lhom
	Width of homogeneous direction. More...

Homo1DBlockMatrixMapShPtr	m_homogeneous1DBlockMat

Array< OneD, ExpListSharedPtr >	m_planes

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

Private Attributes
bool	m_dealiasing

int	m_padsize

Array< OneD, NekDouble >	m_specVanVisc
	Spectral vanishing Viscosity coefficient for stabilisation. More...

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

Detailed Description

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

Definition at line 77 of file ExpListHomogeneous1D.h.

Constructor & Destructor Documentation

Nektar::MultiRegions::ExpListHomogeneous1D::ExpListHomogeneous1D ( )

Default constructor.

Definition at line 48 of file ExpListHomogeneous1D.cpp.

                                                   :
             ExpList(),
             m_homogeneousBasis(LibUtilities::NullBasisSharedPtr),
             m_lhom(1),
             m_homogeneous1DBlockMat(MemoryManager<Homo1DBlockMatrixMap>::AllocateSharedPtr())
         {
         }

Nektar::MultiRegions::ExpListHomogeneous1D::ExpListHomogeneous1D	(	const LibUtilities::SessionReaderSharedPtr &	pSession,
		const LibUtilities::BasisKey &	HomoBasis,
		const NekDouble	lz,
		const bool	useFFT,
		const bool	dealiasing
	)

Definition at line 56 of file ExpListHomogeneous1D.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, m_FFT_deal, m_homogeneousBasis, m_padsize, m_planes, Nektar::MultiRegions::ExpList::m_session, m_StripZcomm, m_transposition, m_useFFT, and Nektar::LibUtilities::NullBasisKey().

                                                                                                                                 :
             ExpList(pSession),
             m_useFFT(useFFT),
             m_lhom(lhom),
             m_homogeneous1DBlockMat(MemoryManager<Homo1DBlockMatrixMap>::AllocateSharedPtr()),
             m_dealiasing(dealiasing)
         {
             ASSERTL2(HomoBasis != LibUtilities::NullBasisKey,"Homogeneous Basis is a null basis");
             
             m_homogeneousBasis = LibUtilities::BasisManager()[HomoBasis];
 
             m_StripZcomm = m_session->DefinesSolverInfo("HomoStrip") ?
                            m_comm->GetColumnComm()->GetColumnComm()  :
                            m_comm->GetColumnComm();
 
             m_transposition = MemoryManager<LibUtilities::Transposition>
                                 ::AllocateSharedPtr(HomoBasis, m_StripZcomm);
 
             m_planes = Array<OneD,ExpListSharedPtr>(
                                 m_homogeneousBasis->GetNumPoints() /
                                 m_StripZcomm->GetSize());
 
             if(m_useFFT)
             {
                 m_FFT = LibUtilities::GetNektarFFTFactory().CreateInstance(
                                 "NekFFTW", m_homogeneousBasis->GetNumPoints());
             }
 
             if(m_dealiasing)
             {
                 if(m_useFFT)
                 {
                     NekDouble size = 1.5*m_homogeneousBasis->GetNumPoints();
                     m_padsize = int(size);
                     m_FFT_deal = LibUtilities::GetNektarFFTFactory()
                                     .CreateInstance("NekFFTW", m_padsize);
                 }
                 else
                 {
                     ASSERTL0(false, "Dealiasing available just in combination "
                                     "with FFTW");
                 }
             }
         }

Nektar::MultiRegions::ExpListHomogeneous1D::ExpListHomogeneous1D ( const ExpListHomogeneous1D & In )

Copy constructor.

Parameters

In	ExpListHomogeneous1D object to copy.

Definition at line 106 of file ExpListHomogeneous1D.cpp.

References m_planes.

                                                                                 :
             ExpList(In,false),
             m_transposition(In.m_transposition),
             m_useFFT(In.m_useFFT),
             m_FFT(In.m_FFT),
             m_tmpIN(In.m_tmpIN),
             m_tmpOUT(In.m_tmpOUT),
             m_homogeneousBasis(In.m_homogeneousBasis),
             m_lhom(In.m_lhom), 
             m_homogeneous1DBlockMat(In.m_homogeneous1DBlockMat),
             m_dealiasing(In.m_dealiasing),
             m_padsize(In.m_padsize)
         {
             m_planes = Array<OneD, ExpListSharedPtr>(In.m_planes.num_elements());
         }

Nektar::MultiRegions::ExpListHomogeneous1D::~ExpListHomogeneous1D ( )

virtual

Destructor.

Destructor

Definition at line 125 of file ExpListHomogeneous1D.cpp.

126 {

127 }

Member Function Documentation

void Nektar::MultiRegions::ExpListHomogeneous1D::DealiasedProd	(	const Array< OneD, NekDouble > &	inarray1,
		const Array< OneD, NekDouble > &	inarray2,
		Array< OneD, NekDouble > &	outarray,
		CoeffState	coeffstate = `eLocal`
	)

inline

Definition at line 297 of file ExpListHomogeneous1D.h.

References v_DealiasedProd().

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

DNekBlkMatSharedPtr Nektar::MultiRegions::ExpListHomogeneous1D::GenHomogeneous1DBlockMatrix	(	Homogeneous1DMatType	mattype,
		CoeffState	coeffstate = `eLocal`
	)		const

protected

Definition at line 506 of file ExpListHomogeneous1D.cpp.

References Nektar::MemoryManager< DataType >::AllocateSharedPtr(), Nektar::MultiRegions::eBackwardsCoeffSpace1D, Nektar::StdRegions::eBwdTrans, Nektar::eDIAGONAL, Nektar::MultiRegions::eForwardsCoeffSpace1D, Nektar::MultiRegions::eForwardsPhysSpace1D, Nektar::LibUtilities::eFourierHalfModeIm, Nektar::LibUtilities::eFourierHalfModeRe, Nektar::StdRegions::eFwdTrans, Nektar::MultiRegions::ExpList::m_comm, m_homogeneousBasis, and m_planes.

Referenced by GetHomogeneous1DBlockMatrix().

         {
             DNekMatSharedPtr    loc_mat;
             DNekBlkMatSharedPtr BlkMatrix;
             int n_exp = 0;
             int num_trans_per_proc = 0;
             
             if((mattype == eForwardsCoeffSpace1D)
                ||(mattype == eBackwardsCoeffSpace1D)) // will operate on m_coeffs
             {
                 n_exp = m_planes[0]->GetNcoeffs();
             }
             else
             {
                 n_exp = m_planes[0]->GetTotPoints(); // will operatore on m_phys
             }
 
             num_trans_per_proc = n_exp/m_comm->GetColumnComm()->GetSize() + (n_exp%m_comm->GetColumnComm()->GetSize() > 0);
 
             Array<OneD,unsigned int> nrows(num_trans_per_proc);
             Array<OneD,unsigned int> ncols(num_trans_per_proc);
 
             if((mattype == eForwardsCoeffSpace1D)||(mattype == eForwardsPhysSpace1D))
             {
                 nrows = Array<OneD, unsigned int>(num_trans_per_proc,m_homogeneousBasis->GetNumModes());
                 ncols = Array<OneD, unsigned int>(num_trans_per_proc,m_homogeneousBasis->GetNumPoints());
             }
             else
             {
                 nrows = Array<OneD, unsigned int>(num_trans_per_proc,m_homogeneousBasis->GetNumPoints());
                 ncols = Array<OneD, unsigned int>(num_trans_per_proc,m_homogeneousBasis->GetNumModes());
             }
 
             MatrixStorage blkmatStorage = eDIAGONAL;
             BlkMatrix = MemoryManager<DNekBlkMat>
                 ::AllocateSharedPtr(nrows,ncols,blkmatStorage);
 
             //Half Mode
             if(m_homogeneousBasis->GetBasisType() == LibUtilities::eFourierHalfModeRe || m_homogeneousBasis->GetBasisType() == LibUtilities::eFourierHalfModeIm)
             {
                 StdRegions::StdPointExp StdPoint(m_homogeneousBasis->GetBasisKey());
                 
                 if((mattype == eForwardsCoeffSpace1D)||(mattype == eForwardsPhysSpace1D))
                 {
                     StdRegions::StdMatrixKey matkey(StdRegions::eFwdTrans,
                                                     StdPoint.DetShapeType(),
                                                     StdPoint);
                     
                     loc_mat = StdPoint.GetStdMatrix(matkey);
                 }
                 else
                 {
                     StdRegions::StdMatrixKey matkey(StdRegions::eBwdTrans,
                                                     StdPoint.DetShapeType(),
                                                     StdPoint);
                     
                     loc_mat = StdPoint.GetStdMatrix(matkey);
                 }
             }
             //other cases
             else 
             {
                 StdRegions::StdSegExp StdSeg(m_homogeneousBasis->GetBasisKey());
                 
                 if((mattype == eForwardsCoeffSpace1D)||(mattype == eForwardsPhysSpace1D))
                 {
                     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(int i = 0; i < num_trans_per_proc; ++i)
             {
                 BlkMatrix->SetBlock(i,i,loc_mat);
             }
 
             return BlkMatrix;
         }

DNekBlkMatSharedPtr Nektar::MultiRegions::ExpListHomogeneous1D::GetHomogeneous1DBlockMatrix	(	Homogeneous1DMatType	mattype,
		CoeffState	coeffstate = `eLocal`
	)		const

protected

Definition at line 490 of file ExpListHomogeneous1D.cpp.

References GenHomogeneous1DBlockMatrix(), Nektar::iterator, and m_homogeneous1DBlockMat.

Referenced by Homogeneous1DTrans().

         {
             Homo1DBlockMatrixMap::iterator matrixIter = m_homogeneous1DBlockMat->find(mattype);
             
             if(matrixIter == m_homogeneous1DBlockMat->end())
             {
                 return ((*m_homogeneous1DBlockMat)[mattype] =
                         GenHomogeneous1DBlockMatrix(mattype,coeffstate));
             }
             else
             {
                 return matrixIter->second;
             }
         }

LibUtilities::BasisSharedPtr Nektar::MultiRegions::ExpListHomogeneous1D::GetHomogeneousBasis ( void )

inline

Definition at line 117 of file ExpListHomogeneous1D.h.

References m_homogeneousBasis.

Referenced by v_GetHomogeneousBasis().

             {
                 return m_homogeneousBasis;
             }

ExpListSharedPtr& Nektar::MultiRegions::ExpListHomogeneous1D::GetPlane ( int n )

inline

Definition at line 131 of file ExpListHomogeneous1D.h.

References m_planes.

Referenced by v_GetPlane().

             {
                 return m_planes[n];
             }

NekDouble Nektar::MultiRegions::ExpListHomogeneous1D::GetSpecVanVisc ( const int k )

inlineprotected

Definition at line 162 of file ExpListHomogeneous1D.h.

References m_specVanVisc.

Referenced by Nektar::MultiRegions::ContField3DHomogeneous1D::v_HelmSolve(), and Nektar::MultiRegions::DisContField3DHomogeneous1D::v_HelmSolve().

             {
                 NekDouble returnval = 0.0;
 
                 if(m_specVanVisc.num_elements())
                 {
                     returnval = m_specVanVisc[k];
                 }
                 
                 return returnval; 
             }

void Nektar::MultiRegions::ExpListHomogeneous1D::Homogeneous1DTrans	(	const Array< OneD, const NekDouble > &	inarray,
		Array< OneD, NekDouble > &	outarray,
		bool	IsForwards,
		CoeffState	coeffstate = `eLocal`,
		bool	Shuff = `true`,
		bool	UnShuff = `true`
	)

Homogeneous transform Bwd/Fwd (MVM and FFT)

Definition at line 357 of file ExpListHomogeneous1D.cpp.

References Nektar::MultiRegions::eBackwardsCoeffSpace1D, Nektar::MultiRegions::eBackwardsPhysSpace1D, Nektar::MultiRegions::eForwardsCoeffSpace1D, Nektar::MultiRegions::eForwardsPhysSpace1D, Nektar::eWrapper, Nektar::LibUtilities::eXYtoZ, Nektar::LibUtilities::eZtoXY, GetHomogeneous1DBlockMatrix(), Nektar::MultiRegions::ExpList::m_comm, m_FFT, m_homogeneousBasis, Nektar::MultiRegions::ExpList::m_npoints, m_planes, Nektar::MultiRegions::ExpList::m_session, m_StripZcomm, m_tmpIN, m_tmpOUT, m_transposition, m_useFFT, and Vmath::Vcopy().

Referenced by v_HomogeneousBwdTrans(), and v_HomogeneousFwdTrans().

         {
             int num_dofs;
             
             if(IsForwards) 
             {
                 num_dofs = inarray.num_elements();
             }
             else
             {
                 num_dofs = outarray.num_elements();
             }
             
             if(m_useFFT)
             {        
                 int num_points_per_plane = num_dofs/m_planes.num_elements();
                 int num_dfts_per_proc;
                 if(!m_session->DefinesSolverInfo("HomoStrip"))
                 {
                     int nP = m_comm->GetColumnComm()->GetSize();
                     num_dfts_per_proc = num_points_per_plane / nP
                                       + (num_points_per_plane % nP > 0);
                 }
                 else
                 {
                     int nP = m_StripZcomm->GetSize();
                     num_dfts_per_proc = num_points_per_plane / nP
                                       + (num_points_per_plane % nP > 0);
                 }
 
                 Array<OneD, NekDouble> fft_in (num_dfts_per_proc*m_homogeneousBasis->GetNumPoints(),0.0);
                 Array<OneD, NekDouble> fft_out(num_dfts_per_proc*m_homogeneousBasis->GetNumPoints(),0.0);
         
                 if(Shuff)
                 {
                     m_transposition->Transpose(inarray,fft_in,false,LibUtilities::eXYtoZ);
                 }
                 else 
                 {
                     Vmath::Vcopy(num_dfts_per_proc*m_homogeneousBasis->GetNumPoints(),
                                  inarray,1,fft_in,1);
                 }
                 
                 if(IsForwards)
                 {
                     for(int i = 0 ; i < num_dfts_per_proc ; i++)
                     {
                         m_FFT->FFTFwdTrans(m_tmpIN = fft_in + i*m_homogeneousBasis->GetNumPoints(), m_tmpOUT = fft_out + i*m_homogeneousBasis->GetNumPoints());
                     }
                 }
                 else 
                 {
                     for(int i = 0 ; i < num_dfts_per_proc ; i++)
                     {
                         m_FFT->FFTBwdTrans(m_tmpIN = fft_in + i*m_homogeneousBasis->GetNumPoints(), m_tmpOUT = fft_out + i*m_homogeneousBasis->GetNumPoints());
                     }
                 }
         
                 if(UnShuff)
                 {
                     m_transposition->Transpose(fft_out,outarray,false,LibUtilities::eZtoXY);
                 }
                 else 
                 {
                     Vmath::Vcopy(num_dfts_per_proc*m_homogeneousBasis->GetNumPoints(),
                                  fft_out,1,outarray,1);
                 }
             }
             else 
             {
                 DNekBlkMatSharedPtr blkmat;
         
                 if(num_dofs == m_npoints) //transform phys space
                 {
                     if(IsForwards)
                     {
                         blkmat = GetHomogeneous1DBlockMatrix(eForwardsPhysSpace1D);
                     }
                     else
                     {
                         blkmat = GetHomogeneous1DBlockMatrix(eBackwardsPhysSpace1D);
                     }
                 }
                 else
                 {
                     if(IsForwards)
                     {
                         blkmat = GetHomogeneous1DBlockMatrix(eForwardsCoeffSpace1D,coeffstate);
                     }
                     else
                     {
                         blkmat = GetHomogeneous1DBlockMatrix(eBackwardsCoeffSpace1D,coeffstate);
                     }
                 }
         
                 int nrows = blkmat->GetRows();
                 int ncols = blkmat->GetColumns();
         
                 Array<OneD, NekDouble> sortedinarray(ncols,0.0);
                 Array<OneD, NekDouble> sortedoutarray(nrows,0.0);
         
                 if(Shuff)
                 {
                     m_transposition->Transpose(inarray,sortedinarray,!IsForwards,LibUtilities::eXYtoZ);
                 }
                 else 
                 {
                     Vmath::Vcopy(ncols,inarray,1,sortedinarray,1);
                 }
                 
                 // Create NekVectors from the given data arrays
                 NekVector<NekDouble> in (ncols,sortedinarray,eWrapper);
                 NekVector<NekDouble> out(nrows,sortedoutarray,eWrapper);
         
                 // Perform matrix-vector multiply.
                 out = (*blkmat)*in;
         
                 if(UnShuff)
                 {
                     m_transposition->Transpose(sortedoutarray,outarray,IsForwards,LibUtilities::eZtoXY);
                 }
                 else 
                 {
                     Vmath::Vcopy(nrows,sortedinarray,1,outarray,1);
                 }
                 
             }
         }

void Nektar::MultiRegions::ExpListHomogeneous1D::HomogeneousBwdTrans	(	const Array< OneD, const NekDouble > &	inarray,
		Array< OneD, NekDouble > &	outarray,
		CoeffState	coeffstate = `eLocal`,
		bool	Shuff = `true`,
		bool	UnShuff = `true`
	)

inline

Definition at line 288 of file ExpListHomogeneous1D.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::ExpListHomogeneous1D::HomogeneousFwdTrans	(	const Array< OneD, const NekDouble > &	inarray,
		Array< OneD, NekDouble > &	outarray,
		CoeffState	coeffstate = `eLocal`,
		bool	Shuff = `true`,
		bool	UnShuff = `true`
	)

inline

Definition at line 279 of file ExpListHomogeneous1D.h.

References v_HomogeneousFwdTrans().

Referenced by v_DealiasedProd(), v_FwdTrans(), v_FwdTrans_IterPerExp(), Nektar::MultiRegions::ContField3DHomogeneous1D::v_HelmSolve(), Nektar::MultiRegions::DisContField3DHomogeneous1D::v_HelmSolve(), and v_PhysDeriv().

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

void Nektar::MultiRegions::ExpListHomogeneous1D::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 1102 of file ExpListHomogeneous1D.cpp.

References v_PhysDeriv().

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

void Nektar::MultiRegions::ExpListHomogeneous1D::PhysDeriv	(	Direction	edir,
		const Array< OneD, const NekDouble > &	inarray,
		Array< OneD, NekDouble > &	out_d
	)

Definition at line 1111 of file ExpListHomogeneous1D.cpp.

References v_PhysDeriv().

         {
             v_PhysDeriv(edir,inarray,out_d);
         }

void Nektar::MultiRegions::ExpListHomogeneous1D::v_AppendFieldData	(	LibUtilities::FieldDefinitionsSharedPtr &	fielddef,
		std::vector< NekDouble > &	fielddata
	)

protectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 677 of file ExpListHomogeneous1D.cpp.

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

         {
            v_AppendFieldData(fielddef,fielddata,m_coeffs);
         }

void Nektar::MultiRegions::ExpListHomogeneous1D::v_AppendFieldData	(	LibUtilities::FieldDefinitionsSharedPtr &	fielddef,
		std::vector< NekDouble > &	fielddata,
		Array< OneD, NekDouble > &	coeffs
	)

protectedvirtual

This routine appends the data from the expansion list into the output format where each element is given by looping over its Fourier modes where as data in the expandion is stored with all consecutive elements and then the Fourier modes

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 652 of file ExpListHomogeneous1D.cpp.

References Nektar::MultiRegions::ExpList::m_coeff_offset, and m_planes.

         {
             int i,n;
             int ncoeffs_per_plane = m_planes[0]->GetNcoeffs();
 
             // Determine mapping from element ids to location in
             // expansion list
             map<int, int> ElmtID_to_ExpID;
             for(i = 0; i < m_planes[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(n = 0; n < m_planes.num_elements(); ++n)
                 {
                     fielddata.insert(fielddata.end(),&coeffs[m_coeff_offset[eid]+n*ncoeffs_per_plane],&coeffs[m_coeff_offset[eid]+n*ncoeffs_per_plane]+datalen);
                 }
             }
         }

void Nektar::MultiRegions::ExpListHomogeneous1D::v_BwdTrans	(	const Array< OneD, const NekDouble > &	inarray,
		Array< OneD, NekDouble > &	outarray,
		CoeffState	coeffstate
	)

protectedvirtual

Backward transform

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 281 of file ExpListHomogeneous1D.cpp.

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

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

void Nektar::MultiRegions::ExpListHomogeneous1D::v_BwdTrans_IterPerExp	(	const Array< OneD, const NekDouble > &	inarray,
		Array< OneD, NekDouble > &	outarray
	)

protectedvirtual

Backward transform element by element

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 302 of file ExpListHomogeneous1D.cpp.

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

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

void Nektar::MultiRegions::ExpListHomogeneous1D::v_DealiasedProd	(	const Array< OneD, NekDouble > &	inarray1,
		const Array< OneD, NekDouble > &	inarray2,
		Array< OneD, NekDouble > &	outarray,
		CoeffState	coeffstate = `eLocal`
	)

protectedvirtual

Dealiasing routine

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 152 of file ExpListHomogeneous1D.cpp.

References Nektar::LibUtilities::eXYtoZ, Nektar::LibUtilities::eZtoXY, HomogeneousBwdTrans(), HomogeneousFwdTrans(), Nektar::MultiRegions::ExpList::m_comm, m_FFT_deal, m_homogeneousBasis, m_padsize, m_planes, Nektar::MultiRegions::ExpList::m_session, m_StripZcomm, m_transposition, Vmath::Vcopy(), and Vmath::Vmul().

Referenced by DealiasedProd().

         {
             // inarray1 = first term of the product in full physical space
             // inarray2 = second term of the product in full physical space
             // dealiased product stored in outarray
 
             int num_dofs = inarray1.num_elements();
 
             int N = m_homogeneousBasis->GetNumPoints();
 
             Array<OneD, NekDouble> V1(num_dofs);
             Array<OneD, NekDouble> V2(num_dofs);
             Array<OneD, NekDouble> V1V2(num_dofs);
 
             HomogeneousFwdTrans(inarray1,V1,coeffstate);
             HomogeneousFwdTrans(inarray2,V2,coeffstate);
 
             int num_points_per_plane = num_dofs/m_planes.num_elements();
             int num_proc;
             if(!m_session->DefinesSolverInfo("HomoStrip"))
             {
                 num_proc             = m_comm->GetColumnComm()->GetSize();
             }
             else
             {
                 num_proc             = m_StripZcomm->GetSize();
             }
             int num_dfts_per_proc    = num_points_per_plane / num_proc
                                         + (num_points_per_plane % num_proc > 0);
 
             Array<OneD, NekDouble> ShufV1(num_dfts_per_proc*N,0.0);
             Array<OneD, NekDouble> ShufV2(num_dfts_per_proc*N,0.0);
             Array<OneD, NekDouble> ShufV1V2(num_dfts_per_proc*N,0.0);
 
             Array<OneD, NekDouble> ShufV1_PAD_coef(m_padsize,0.0);
             Array<OneD, NekDouble> ShufV2_PAD_coef(m_padsize,0.0);
             Array<OneD, NekDouble> ShufV1_PAD_phys(m_padsize,0.0);
             Array<OneD, NekDouble> ShufV2_PAD_phys(m_padsize,0.0);
 
             Array<OneD, NekDouble> ShufV1V2_PAD_coef(m_padsize,0.0);
             Array<OneD, NekDouble> ShufV1V2_PAD_phys(m_padsize,0.0);
 
             m_transposition->Transpose(V1, ShufV1, false, LibUtilities::eXYtoZ);
             m_transposition->Transpose(V2, ShufV2, false, LibUtilities::eXYtoZ);
 
             // Looping on the pencils
             for(int i = 0 ; i < num_dfts_per_proc ; i++)
             {
                 // Copying the i-th pencil pf lenght N into a bigger
                 // pencil of lenght 2N We are in Fourier space
                 Vmath::Vcopy(N, &(ShufV1[i*N]), 1, &(ShufV1_PAD_coef[0]), 1);
                 Vmath::Vcopy(N, &(ShufV2[i*N]), 1, &(ShufV2_PAD_coef[0]), 1);
 
                 // Moving to physical space using the padded system
                 m_FFT_deal->FFTBwdTrans(ShufV1_PAD_coef, ShufV1_PAD_phys);
                 m_FFT_deal->FFTBwdTrans(ShufV2_PAD_coef, ShufV2_PAD_phys);
 
                 // Perfroming the vectors multiplication in physical space on
                 // the padded system
                 Vmath::Vmul(m_padsize, ShufV1_PAD_phys,   1,
                                        ShufV2_PAD_phys,   1,
                                        ShufV1V2_PAD_phys, 1);
 
                 // Moving back the result (V1*V2)_phys in Fourier space, padded
                 // system
                 m_FFT_deal->FFTFwdTrans(ShufV1V2_PAD_phys, ShufV1V2_PAD_coef);
 
                 // Copying the first half of the padded pencil in the full
                 // vector (Fourier space)
                 Vmath::Vcopy(N, &(ShufV1V2_PAD_coef[0]), 1,
                                 &(ShufV1V2[i*N]),        1);
             }
 
             m_transposition->Transpose(ShufV1V2, V1V2, false,
                                        LibUtilities::eZtoXY);
 
             // Moving the results in physical space for the output
             HomogeneousBwdTrans(V1V2, outarray, coeffstate);
         }

void Nektar::MultiRegions::ExpListHomogeneous1D::v_ExtractCoeffsToCoeffs	(	const boost::shared_ptr< ExpList > &	fromExpList,
		const Array< OneD, const NekDouble > &	fromCoeffs,
		Array< OneD, NekDouble > &	toCoeffs
	)

protectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 808 of file ExpListHomogeneous1D.cpp.

References Nektar::MultiRegions::ExpList::m_ncoeffs, and m_planes.

         {
             int i;
             int fromNcoeffs_per_plane = fromExpList->GetPlane(0)->GetNcoeffs();
             Array<OneD, NekDouble> tocoeffs_tmp, fromcoeffs_tmp; 
             
             for(i = 0; i < m_planes.num_elements(); ++i)
             {
                 m_planes[i]->ExtractCoeffsToCoeffs(fromExpList->GetPlane(i),fromcoeffs_tmp =  fromCoeffs + fromNcoeffs_per_plane*i, tocoeffs_tmp = toCoeffs + m_ncoeffs*i);
             }
         }

void Nektar::MultiRegions::ExpListHomogeneous1D::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 683 of file ExpListHomogeneous1D.cpp.

References ASSERTL1, Nektar::LibUtilities::GetNumberOfCoefficients(), Nektar::iterator, Nektar::MultiRegions::ExpList::m_coeff_offset, Nektar::MultiRegions::ExpList::m_exp, m_homogeneousBasis, m_planes, m_transposition, and Vmath::Vcopy().

         {
             int i,n;
             int offset  = 0;
             int nzmodes = 1;
             int datalen = fielddata.size()/fielddef->m_fields.size();
             std::vector<unsigned int> fieldDefHomoZids;
             
             
             // 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;
             }
 
             if(i == fielddef->m_fields.size())
             {
                 cout << "Field "<< field<< "not found in data file. "  << endl;
             }
             else
             {
                 
                 int modes_offset = 0;
                 int planes_offset = 0;
                 Array<OneD, NekDouble> coeff_tmp;
                 std::map<int,int>::iterator it;
 
 
                 // Build map of plane IDs lying on this processor.
                 std::map<int,int> homoZids;
                 for (i = 0; i < m_planes.num_elements(); ++i)
                 {
                     homoZids[m_transposition->GetPlaneID(i)] = i;
                 }
                 
                 if(fielddef->m_numHomogeneousDir)
                 {
                     for(i = 0; i < fielddef->m_basis.size(); ++i)
                     {
                         if(fielddef->m_basis[i] == m_homogeneousBasis->GetBasisType())
                         {
                             nzmodes = fielddef->m_homogeneousZIDs.size();
                             break;
                         }
                     }
                     ASSERTL1(i != fielddef->m_basis.size(),"Failed to determine number of Homogeneous modes");
                     
                     fieldDefHomoZids = fielddef->m_homogeneousZIDs;
                 }
                 else // input file is 2D and so set nzmodes to 1
                 {
                     nzmodes = 1;
                     fieldDefHomoZids.push_back(0);
                 }
                 
                 // Determine mapping from element ids to location in expansion list.
                 map<int, int> ElmtID_to_ExpID;
                 for(i = 0; i < m_planes[0]->GetExpSize(); ++i)
                 {
                     ElmtID_to_ExpID[(*m_exp)[i]->GetGeom()->GetGlobalID()] = i;
                 }
                 
 
                 // calculate number of modes in the current partition
                 int ncoeffs_per_plane = m_planes[0]->GetNcoeffs(); 
                 
                 for(i = 0; i < fielddef->m_elementIDs.size(); ++i)
                 {
                     if(fielddef->m_uniOrder == true) // reset modes_offset to zero
                     {
                         modes_offset = 0;
                     }
                     
                     int datalen = LibUtilities::GetNumberOfCoefficients(fielddef->m_shapeType, 
                                                                         fielddef->m_numModes,
                                                                         modes_offset);
 
                     it = ElmtID_to_ExpID.find(fielddef->m_elementIDs[i]); 
                     
                     // ensure element is on this partition for parallel case. 
                     if(it == ElmtID_to_ExpID.end())
                     {
                         // increase offset for correct FieldData access
                         offset += datalen*nzmodes;
                         continue;
                     }
                     
                     int eid = it->second;
                         
                     
                     for(n = 0; n < nzmodes; ++n, offset += datalen)
                     {
                         
                         it = homoZids.find(fieldDefHomoZids[n]);
                         
                         // Check to make sure this mode number lies in this field.
                         if (it == homoZids.end())
                         {
                             continue;
                         } 
                         
                         planes_offset = it->second;
                         if(datalen == (*m_exp)[eid]->GetNcoeffs())
                         {
                             Vmath::Vcopy(datalen,&fielddata[offset],1,&coeffs[m_coeff_offset[eid]+planes_offset*ncoeffs_per_plane],1);
                         }
                         else // unpack data to new order
                         {
                             (*m_exp)[eid]->ExtractDataToCoeffs(&fielddata[offset], fielddef->m_numModes,modes_offset,&coeffs[m_coeff_offset[eid] + planes_offset*ncoeffs_per_plane]);
                         }
                     }
                     modes_offset += (*m_exp)[0]->GetNumBases();
                 }
             }
         }

void Nektar::MultiRegions::ExpListHomogeneous1D::v_FwdTrans	(	const Array< OneD, const NekDouble > &	inarray,
		Array< OneD, NekDouble > &	outarray,
		CoeffState	coeffstate
	)

protectedvirtual

Forward transform

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 238 of file ExpListHomogeneous1D.cpp.

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

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

void Nektar::MultiRegions::ExpListHomogeneous1D::v_FwdTrans_IterPerExp	(	const Array< OneD, const NekDouble > &	inarray,
		Array< OneD, NekDouble > &	outarray
	)

protectedvirtual

Forward transform element by element

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 260 of file ExpListHomogeneous1D.cpp.

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

         {
             int cnt = 0, cnt1 = 0;
             Array<OneD, NekDouble> tmparray;
             
             //spectral element FwdTrans plane by plane
             for(int n = 0; n < m_planes.num_elements(); ++n)
             {
                 m_planes[n]->FwdTrans_IterPerExp(inarray+cnt, tmparray = outarray + cnt1);
                 cnt   += m_planes[n]->GetTotPoints();
                 cnt1  += m_planes[n]->GetNcoeffs();
             }
             if(!m_WaveSpace)
             {
                 HomogeneousFwdTrans(outarray,outarray);
             }
         }

std::vector< LibUtilities::FieldDefinitionsSharedPtr > Nektar::MultiRegions::ExpListHomogeneous1D::v_GetFieldDefinitions ( void )

protectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 598 of file ExpListHomogeneous1D.cpp.

References m_homogeneousBasis, m_lhom, m_planes, Nektar::MultiRegions::ExpList::m_session, and m_transposition.

         {
             std::vector<LibUtilities::FieldDefinitionsSharedPtr> returnval;
             
             // Set up Homogeneous length details.
             Array<OneD,LibUtilities::BasisSharedPtr> HomoBasis(1,m_homogeneousBasis);
             
             std::vector<NekDouble> HomoLen;
             HomoLen.push_back(m_lhom);
             
             std::vector<unsigned int> PlanesIDs;
             
             for(int i = 0; i < m_planes.num_elements(); i++)
             {
                 PlanesIDs.push_back(m_transposition->GetPlaneID(i));
             }
             
             int NumHomoStrip;
             m_session->LoadParameter("Strip_Z",NumHomoStrip,1);
  
             m_planes[0]->GeneralGetFieldDefinitions(returnval, 1, NumHomoStrip, HomoBasis, HomoLen, PlanesIDs);
             
             return returnval;
         }

void Nektar::MultiRegions::ExpListHomogeneous1D::v_GetFieldDefinitions ( std::vector< LibUtilities::FieldDefinitionsSharedPtr > & fielddef )

protectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 623 of file ExpListHomogeneous1D.cpp.

References m_homogeneousBasis, m_lhom, m_planes, Nektar::MultiRegions::ExpList::m_session, and m_transposition.

         {
             // Set up Homogeneous length details.
             Array<OneD,LibUtilities::BasisSharedPtr> HomoBasis(1,m_homogeneousBasis);
             
             std::vector<NekDouble> HomoLen;
             HomoLen.push_back(m_lhom);
             
             std::vector<unsigned int> PlanesIDs;
             
             for(int i = 0; i < m_planes.num_elements(); i++)
             {
                 PlanesIDs.push_back(m_transposition->GetPlaneID(i));
             }
             
             int NumHomoStrip;
             m_session->LoadParameter("Strip_Z",NumHomoStrip,1);
 
             // enforce NumHomoDir == 1 by direct call
             m_planes[0]->GeneralGetFieldDefinitions(fielddef, 1, NumHomoStrip, HomoBasis,HomoLen,PlanesIDs);
         }

virtual LibUtilities::BasisSharedPtr Nektar::MultiRegions::ExpListHomogeneous1D::v_GetHomogeneousBasis ( void )

inlineprotectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 185 of file ExpListHomogeneous1D.h.

References GetHomogeneousBasis().

             {
                 return GetHomogeneousBasis();
             }

NekDouble Nektar::MultiRegions::ExpListHomogeneous1D::v_GetHomoLen ( void )

protectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 1123 of file ExpListHomogeneous1D.cpp.

References m_lhom.

         {
             return m_lhom;
         }

virtual int Nektar::MultiRegions::ExpListHomogeneous1D::v_GetNumElmts ( void )

inlineprotectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 180 of file ExpListHomogeneous1D.h.

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

virtual ExpListSharedPtr& Nektar::MultiRegions::ExpListHomogeneous1D::v_GetPlane ( int n )

inlineprotectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 262 of file ExpListHomogeneous1D.h.

References GetPlane().

             {
                 return GetPlane(n);
             }

LibUtilities::TranspositionSharedPtr Nektar::MultiRegions::ExpListHomogeneous1D::v_GetTransposition ( void )

protectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 1118 of file ExpListHomogeneous1D.cpp.

References m_transposition.

         {
             return m_transposition;
         }

Array< OneD, const unsigned int > Nektar::MultiRegions::ExpListHomogeneous1D::v_GetZIDs ( void )

protectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 1128 of file ExpListHomogeneous1D.cpp.

References m_transposition.

         {
             return m_transposition->GetPlanesIDs();
         }

void Nektar::MultiRegions::ExpListHomogeneous1D::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 139 of file ExpListHomogeneous1D.cpp.

References Homogeneous1DTrans().

Referenced by HomogeneousBwdTrans().

         {
             // Backwards trans
             Homogeneous1DTrans(inarray,outarray,false,coeffstate,Shuff,UnShuff);
         }

void Nektar::MultiRegions::ExpListHomogeneous1D::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 129 of file ExpListHomogeneous1D.cpp.

References Homogeneous1DTrans().

Referenced by HomogeneousFwdTrans().

         {
             // Forwards trans
             Homogeneous1DTrans(inarray,outarray,true,coeffstate,Shuff,UnShuff);
         }

void Nektar::MultiRegions::ExpListHomogeneous1D::v_IProductWRTBase	(	const Array< OneD, const NekDouble > &	inarray,
		Array< OneD, NekDouble > &	outarray,
		CoeffState	coeffstate
	)

protectedvirtual

Inner product

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 323 of file ExpListHomogeneous1D.cpp.

References m_planes.

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

void Nektar::MultiRegions::ExpListHomogeneous1D::v_IProductWRTBase_IterPerExp	(	const Array< OneD, const NekDouble > &	inarray,
		Array< OneD, NekDouble > &	outarray
	)

protectedvirtual

Inner product element by element

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 340 of file ExpListHomogeneous1D.cpp.

References m_planes.

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

void Nektar::MultiRegions::ExpListHomogeneous1D::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 880 of file ExpListHomogeneous1D.cpp.

References ASSERTL0, Nektar::LibUtilities::eFourier, Nektar::LibUtilities::eFourierHalfModeIm, Nektar::LibUtilities::eFourierHalfModeRe, Nektar::LibUtilities::eFourierSingleMode, Nektar::LibUtilities::eXYtoZ, Nektar::LibUtilities::eZtoXY, HomogeneousBwdTrans(), HomogeneousFwdTrans(), Nektar::MultiRegions::ExpList::m_comm, m_homogeneousBasis, m_lhom, m_planes, Nektar::MultiRegions::ExpList::m_session, m_StripZcomm, m_transposition, Nektar::MultiRegions::ExpList::m_WaveSpace, Nektar::NullNekDouble1DArray, sign, and Vmath::Smul().

Referenced by PhysDeriv().

         {
             int nT_pts = inarray.num_elements();          //number of total points = n. of Fourier points * n. of points per plane (nT_pts)
             int nP_pts = nT_pts/m_planes.num_elements();    //number of points per plane = n of Fourier transform required (nP_pts)
             
             Array<OneD, NekDouble> temparray(nT_pts);
             Array<OneD, NekDouble> outarray(nT_pts);
             Array<OneD, NekDouble> tmp1;
             Array<OneD, NekDouble> tmp2;
             Array<OneD, NekDouble> tmp3;            
             
             for(int i = 0; i < m_planes.num_elements(); i++)
             {
                 m_planes[i]->PhysDeriv(inarray + i*nP_pts ,tmp2 = out_d0 + i*nP_pts , tmp3 = out_d1 + i*nP_pts );
             }
             
             if(out_d2 != NullNekDouble1DArray)
             {
                 if(m_homogeneousBasis->GetBasisType() == LibUtilities::eFourier || m_homogeneousBasis->GetBasisType() == LibUtilities::eFourierSingleMode || 
                    m_homogeneousBasis->GetBasisType() == LibUtilities::eFourierHalfModeRe || m_homogeneousBasis->GetBasisType() == LibUtilities::eFourierHalfModeIm)            
                 {
                     if(m_WaveSpace)
                     {
                         temparray = inarray;
                     }
                     else 
                     { 
                         HomogeneousFwdTrans(inarray,temparray);
                     }
                     
                     NekDouble sign = -1.0;
                     NekDouble beta;
                     
                     //Half Mode
                     if(m_homogeneousBasis->GetBasisType() == LibUtilities::eFourierHalfModeRe)
                     {
                         beta = sign*2*M_PI*(m_transposition->GetK(0))/m_lhom;
                         
                         Vmath::Smul(nP_pts,beta,temparray,1,outarray,1);
                     }
                     else if(m_homogeneousBasis->GetBasisType() == LibUtilities::eFourierHalfModeIm)
                     {
                         beta = -sign*2*M_PI*(m_transposition->GetK(0))/m_lhom;
                         
                         Vmath::Smul(nP_pts,beta,temparray,1,outarray,1);
                     }
                     
                     //Fully complex
                     else
                     {
                         for(int i = 0; i < m_planes.num_elements(); i++)
                         {
                             beta = -sign*2*M_PI*(m_transposition->GetK(i))/m_lhom;
                             
                             Vmath::Smul(nP_pts,beta,tmp1 = temparray + i*nP_pts,1,tmp2 = outarray + (i-int(sign))*nP_pts,1);
                             
                             sign = -1.0*sign;
                         }
                     }
                     
                     if(m_WaveSpace)
                     {
                         out_d2 = outarray;
                     }
                     else 
                     {
                         HomogeneousBwdTrans(outarray,out_d2);
                     }
                 }
                 else 
                 {
                     if(!m_session->DefinesSolverInfo("HomoStrip"))
                     {
                         ASSERTL0(m_comm->GetColumnComm()->GetSize() == 1,
                                  "Parallelisation in the homogeneous direction "
                                  "implemented just for Fourier basis");
                     }
                     else
                     {
                         ASSERTL0(m_StripZcomm->GetSize()            == 1,
                                  "Parallelisation in the homogeneous direction "
                                  "implemented just for Fourier basis");
                     }
 
                     if(m_WaveSpace)
                     {
                         ASSERTL0(false, "Semi-phyisical time-stepping not "
                                         "implemented yet for non-Fourier "
                                         "basis");
                     }
                     else 
                     {
                         StdRegions::StdSegExp StdSeg(m_homogeneousBasis->GetBasisKey());
                         
                         m_transposition->Transpose(inarray,temparray,false,LibUtilities::eXYtoZ);
                         
                         for(int i = 0; i < nP_pts; i++)
                         {
                             StdSeg.PhysDeriv(temparray + i*m_planes.num_elements(), tmp2 = outarray + i*m_planes.num_elements());
                         }
                         
                         m_transposition->Transpose(outarray,out_d2,false,LibUtilities::eZtoXY);
                         
                         Vmath::Smul(nT_pts,2.0/m_lhom,out_d2,1,out_d2,1);                    
                     }
                 }
             }
         }

void Nektar::MultiRegions::ExpListHomogeneous1D::v_PhysDeriv	(	Direction	edir,
		const Array< OneD, const NekDouble > &	inarray,
		Array< OneD, NekDouble > &	out_d
	)

protectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 992 of file ExpListHomogeneous1D.cpp.

References ASSERTL0, Nektar::LibUtilities::eFourier, Nektar::LibUtilities::eFourierHalfModeIm, Nektar::LibUtilities::eFourierHalfModeRe, Nektar::LibUtilities::eFourierSingleMode, Nektar::LibUtilities::eXYtoZ, Nektar::LibUtilities::eZtoXY, HomogeneousBwdTrans(), HomogeneousFwdTrans(), Nektar::MultiRegions::ExpList::m_comm, m_homogeneousBasis, m_lhom, m_planes, Nektar::MultiRegions::ExpList::m_session, m_StripZcomm, m_transposition, Nektar::MultiRegions::ExpList::m_WaveSpace, sign, and Vmath::Smul().

         {
             int nT_pts = inarray.num_elements();        //number of total points = n. of Fourier points * n. of points per plane (nT_pts)
             int nP_pts = nT_pts/m_planes.num_elements();  //number of points per plane = n of Fourier transform required (nP_pts)
             
             int dir= (int)edir;
             
             Array<OneD, NekDouble> temparray(nT_pts);
             Array<OneD, NekDouble> outarray(nT_pts);
             Array<OneD, NekDouble> tmp1;
             Array<OneD, NekDouble> tmp2;
             
             if (dir < 2)
             {
                 for(int i=0; i < m_planes.num_elements(); i++)
                 {
                     m_planes[i]->PhysDeriv(edir, inarray + i*nP_pts ,tmp2 = out_d + i*nP_pts);
                 }
             }
             else
             {
                 if(m_homogeneousBasis->GetBasisType() == LibUtilities::eFourier || m_homogeneousBasis->GetBasisType() == LibUtilities::eFourierSingleMode || 
                    m_homogeneousBasis->GetBasisType() == LibUtilities::eFourierHalfModeRe || m_homogeneousBasis->GetBasisType() == LibUtilities::eFourierHalfModeIm)    
                 {
                     if(m_WaveSpace)
                     {
                         temparray = inarray;
                     }
                     else 
                     { 
                         HomogeneousFwdTrans(inarray,temparray);
                     }
                     
                     NekDouble sign = -1.0;
                     NekDouble beta;
                     
                     //HalfMode
                     if(m_homogeneousBasis->GetBasisType() == LibUtilities::eFourierHalfModeRe)
                     {
                         beta = 2*sign*M_PI*(m_transposition->GetK(0))/m_lhom;
             
                         Vmath::Smul(nP_pts,beta,temparray,1,outarray,1);
                     }
                     else if(m_homogeneousBasis->GetBasisType() == LibUtilities::eFourierHalfModeIm)
                     {
                         beta = -2*sign*M_PI*(m_transposition->GetK(0))/m_lhom;
             
                         Vmath::Smul(nP_pts,beta,temparray,1,outarray,1);
                     }
                     //Fully complex
                     else
                     {
                         for(int i = 0; i < m_planes.num_elements(); i++)
                         {
                             beta = -sign*2*M_PI*(m_transposition->GetK(i))/m_lhom;
                             
                             Vmath::Smul(nP_pts,beta,tmp1 = temparray + i*nP_pts,1,tmp2 = outarray + (i-int(sign))*nP_pts,1);
                             
                             sign = -1.0*sign;
                         }
                     }
                     if(m_WaveSpace)
                     {
                         out_d = outarray;
                     }
                     else 
                     {
                         HomogeneousBwdTrans(outarray,out_d);
                     }
                 }
                 else 
                 {
                     if(!m_session->DefinesSolverInfo("HomoStrip"))
                     {
                         ASSERTL0(m_comm->GetColumnComm()->GetSize() == 1,
                                  "Parallelisation in the homogeneous direction "
                                  "implemented just for Fourier basis");
                     }
                     else
                     {
                         ASSERTL0(m_StripZcomm->GetSize()            == 1,
                                  "Parallelisation in the homogeneous direction "
                                  "implemented just for Fourier basis");
                     }
                     
                     if(m_WaveSpace)
                     {
                         ASSERTL0(false,"Semi-phyisical time-stepping not implemented yet for non-Fourier basis");
                     }
                     else 
                     {
                         StdRegions::StdSegExp StdSeg(m_homogeneousBasis->GetBasisKey());
                         
                         m_transposition->Transpose(inarray,temparray,false,LibUtilities::eXYtoZ);
                         
                         for(int i = 0; i < nP_pts; i++)
                         {
                             StdSeg.PhysDeriv(temparray + i*m_planes.num_elements(), tmp2 = outarray + i*m_planes.num_elements());
                         }
             
                         m_transposition->Transpose(outarray,out_d,false,LibUtilities::eZtoXY);
                         
                         Vmath::Smul(nT_pts,2.0/m_lhom,out_d,1,out_d,1);
                     }
                 }
             }
         }

void Nektar::MultiRegions::ExpListHomogeneous1D::v_PhysGalerkinProjection1DScaled	(	const NekDouble	scale,
		const Array< OneD, NekDouble > &	inarray,
		Array< OneD, NekDouble > &	outarray
	)

protectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 863 of file ExpListHomogeneous1D.cpp.

References ASSERTL1, and m_planes.

         {
             int cnt,cnt1;
             Array<OneD, NekDouble> tmparray;
             cnt  = m_planes[0]->Get1DScaledTotPoints(scale);
             cnt1 = m_planes[0]->GetTotPoints();
             
             ASSERTL1(m_planes.num_elements()*cnt <= inarray.num_elements(),"size of outarray does not match internal estimage");
             
             
             for(int i = 0; i < m_planes.num_elements(); i++)
             {
                 m_planes[i]->PhysGalerkinProjection1DScaled(scale,inarray+i*cnt,
                                                  tmparray = outarray+i*cnt1);
             }
             
         }

void Nektar::MultiRegions::ExpListHomogeneous1D::v_PhysInterp1DScaled	(	const NekDouble	scale,
		const Array< OneD, NekDouble > &	inarray,
		Array< OneD, NekDouble > &	outarray
	)

protectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 844 of file ExpListHomogeneous1D.cpp.

References ASSERTL1, and m_planes.

         {
             int cnt,cnt1;
             Array<OneD, NekDouble> tmparray;
             cnt  = m_planes[0]->GetTotPoints();
             cnt1 = m_planes[0]->Get1DScaledTotPoints(scale);
             
             ASSERTL1(m_planes.num_elements()*cnt1 <= outarray.num_elements(),"size of outarray does not match internal estimage");
             
             
             for(int i = 0; i < m_planes.num_elements(); i++)
             {
          
                 m_planes[i]->PhysInterp1DScaled(scale,inarray+i*cnt,
                                                  tmparray = outarray+i*cnt1);
             }
         }

virtual void Nektar::MultiRegions::ExpListHomogeneous1D::v_SetHomo1DSpecVanVisc ( Array< OneD, NekDouble > visc )

inlineprotectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 175 of file ExpListHomogeneous1D.h.

References m_specVanVisc.

             {
                 m_specVanVisc = visc;
             }

void Nektar::MultiRegions::ExpListHomogeneous1D::v_WriteVtkPieceData	(	std::ostream &	outfile,
		int	expansion,
		std::string	var
	)

protectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 821 of file ExpListHomogeneous1D.cpp.

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

         {
             int i;
             int nq = (*m_exp)[expansion]->GetTotPoints();
             int npoints_per_plane = m_planes[0]->GetTotPoints();
 
             // printing the fields of that zone
             outfile << "        <DataArray type=\"Float32\" Name=\""
                     << var << "\">" << endl;
             outfile << "          ";
             for (int n = 0; n < m_planes.num_elements(); ++n)
             {
                 const Array<OneD, NekDouble> phys = m_phys + m_phys_offset[expansion] + n*npoints_per_plane;
                 for(i = 0; i < nq; ++i)
                 {
                     outfile << (fabs(phys[i]) < NekConstants::kNekZeroTol ? 0 : phys[i]) << " ";
                 }
             }
             outfile << endl;
             outfile << "        </DataArray>" << endl;
         }