This class is the abstraction of a one-dimensional multi-elemental expansions which is merely a collection of local expansions. More...

#include <ExpList1D.h>

Inheritance diagram for Nektar::MultiRegions::ExpList1D:

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Collaboration diagram for Nektar::MultiRegions::ExpList1D:

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Public Member Functions
	ExpList1D ()
	The default constructor. More...

	ExpList1D (const ExpList1D &In, const bool DeclareCoeffPhysArrays=true)
	The copy constructor. More...

	ExpList1D (const ExpList1D &In, const std::vector< unsigned int > &eIDs, const bool DeclareCoeffPhysArrays=true, const Collections::ImplementationType ImpType=Collections::eNoImpType)
	Constructor copying only elements defined in eIds. More...

	ExpList1D (const LibUtilities::SessionReaderSharedPtr &pSession, const LibUtilities::BasisKey &Ba, const SpatialDomains::MeshGraphSharedPtr &graph1D, const Collections::ImplementationType ImpType=Collections::eNoImpType)
	Construct an ExpList1D from a given graph. More...

	ExpList1D (const LibUtilities::SessionReaderSharedPtr &pSession, const SpatialDomains::MeshGraphSharedPtr &graph1D, const bool DeclareCoeffPhysArrays=true, const Collections::ImplementationType ImpType=Collections::eNoImpType)
	This constructor sets up a list of local expansions based on an input graph1D. More...

	ExpList1D (const LibUtilities::SessionReaderSharedPtr &pSession, const SpatialDomains::MeshGraphSharedPtr &graph1D, const SpatialDomains::CompositeMap &domain, const bool DeclareCoeffPhysArrays=true, const std::string var="DefaultVar", bool SetToOneSpaceDimension=false, const Collections::ImplementationType ImpType=Collections::eNoImpType)
	This constructor sets up a list of local expansions based on an input compositeMap. More...

	ExpList1D (const LibUtilities::SessionReaderSharedPtr &pSession, const SpatialDomains::CompositeMap &domain, const SpatialDomains::MeshGraphSharedPtr &graph2D, const bool DeclareCoeffPhysArrays=true, const std::string variable="DefaultVar", const Collections::ImplementationType ImpType=Collections::eNoImpType)
	Specialised constructor for Neumann boundary conditions in DisContField2D and ContField2D. More...

	ExpList1D (const LibUtilities::SessionReaderSharedPtr &pSession, const SpatialDomains::CompositeMap &domain, const SpatialDomains::MeshGraphSharedPtr &graph1D, int i, const bool DeclareCoeffPhysArrays=true, const Collections::ImplementationType ImpType=Collections::eNoImpType)

	ExpList1D (const LibUtilities::SessionReaderSharedPtr &pSession, const Array< OneD, const ExpListSharedPtr > &bndConstraint, const Array< OneD, const SpatialDomains::BoundaryConditionShPtr > &bndCond, const LocalRegions::ExpansionVector &locexp, const SpatialDomains::MeshGraphSharedPtr &graph2D, const PeriodicMap &periodicEdges, const bool DeclareCoeffPhysArrays=true, const std::string variable="DefaultVar", const Collections::ImplementationType ImpType=Collections::eNoImpType)
	Specialised constructor for trace expansions. More...

virtual	~ExpList1D ()
	Destructor. More...

void	PostProcess (LibUtilities::KernelSharedPtr kernel, Array< OneD, NekDouble > &inarray, Array< OneD, NekDouble > &outarray, NekDouble h, int elmId=0)
	Performs the post-processing on a specified element. More...

void	PeriodicEval (Array< OneD, NekDouble > &inarray1, Array< OneD, NekDouble > &inarray2, NekDouble h, int nmodes, Array< OneD, NekDouble > &outarray)
	Evaluates the global spectral/hp expansion at some arbitray set of points. More...

void	ParNormalSign (Array< OneD, NekDouble > &normsign)
	Set up the normals on each expansion. More...

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

void	WriteVtkHeader (std::ostream &outfile)

void	WriteVtkFooter (std::ostream &outfile)

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

boost::shared_ptr< ExpList > &	GetTrace ()

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

void	SetUpPhysNormals ()

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

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

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

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

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

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

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

const NekOptimize::GlobalOptParamSharedPtr &	GetGlobalOptParam (void)

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

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

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

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

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

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

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

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

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

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

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

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

SpatialDomains::MeshGraphSharedPtr	GetGraph ()

LibUtilities::BasisSharedPtr	GetHomogeneousBasis (void)

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

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

void	ClearGlobalLinSysManager (void)

Protected Member Functions
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)
	Upwind the Fwd and Bwd states based on the velocity field given by Vec. More...

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)
	Upwind the Fwd and Bwd states based on the one- dimensional normal velocity field given by Vn. More...

void	v_GetNormals (Array< OneD, Array< OneD, NekDouble > > &normals)
	Populate normals with the normals of all expansions. More...

Protected Member Functions inherited from Nektar::MultiRegions::ExpList
void	SetCoeffPhysOffsets ()
	Definition of the total number of degrees of freedom and quadrature points and offsets to access data. More...

boost::shared_ptr< DNekMat >	GenGlobalMatrixFull (const GlobalLinSysKey &mkey, const boost::shared_ptr< AssemblyMapCG > &locToGloMap)

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

const DNekScalBlkMatSharedPtr &	GetBlockMatrix (const GlobalMatrixKey &gkey)

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

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

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

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

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

void	ReadGlobalOptimizationParameters ()

virtual int	v_GetNumElmts (void)

virtual const Array< OneD, const boost::shared_ptr < ExpList > > &	v_GetBndCondExpansions (void)

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

virtual boost::shared_ptr < ExpList > &	v_GetTrace ()

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

virtual void	v_FillBndCondFromField ()

virtual void	v_FillBndCondFromField (const int nreg)

virtual void	v_Reset ()
	Reset geometry information, metrics, matrix managers and geometry information. More...

virtual void	v_LocalToGlobal (bool UseComm)

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

virtual void	v_GlobalToLocal (void)

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

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

virtual LibUtilities::TranspositionSharedPtr	v_GetTransposition (void)

virtual NekDouble	v_GetHomoLen (void)

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

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

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

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

virtual void	v_ClearGlobalLinSysManager (void)

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

Private Member Functions
virtual void	v_ReadGlobalOptimizationParameters ()

virtual void	v_SetUpPhysNormals ()
	Set up the normals on each expansion. More...

virtual void	v_WriteVtkPieceHeader (std::ostream &outfile, int expansion, int istrip)
	const StdRegions::StdExpansionVector &locexp); More...

Private Attributes
int	m_firstIntEl

Array< OneD, NekDouble >	m_normSign

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

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

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

LibUtilities::SessionReaderSharedPtr	m_session
	Session. More...

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

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

int	m_npoints

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

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

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

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

Collections::CollectionVector	m_collections

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

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

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

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

NekOptimize::GlobalOptParamSharedPtr	m_globalOptParam

BlockMatrixMapShPtr	m_blockMat

bool	m_WaveSpace

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

Detailed Description

This class is the abstraction of a one-dimensional multi-elemental expansions which is merely a collection of local expansions.

This multi-elemental expansion, which does not exhibit any coupling between the expansion on the separate elements, can be formulated as,

$u^{\delta}(x_i)=\sum_{e=1}^{{N_{\mathrm{el}}}} \sum_{n=0}^{N^{e}_m-1}\hat{u}_n^e\phi_n^e(x_i).$

where ${N_{\mathrm{el}}}$ is the number of elements and $N^{e}_m$ is the local elemental number of expansion modes.

Instances of this class may be optionally constructed which use generalised segment expansions (LocalRegions::GenSegExp), rather than the standard segment expansions (LocalRegions::SegExp). LocalRegions::GenSegExp provides additional spatial data including segment normals and is enabled using the UseGenSegExp flag.

This class inherits all its variables and member functions from the base class MultiRegions::ExpList.

Definition at line 61 of file ExpList1D.h.

Constructor & Destructor Documentation

Nektar::MultiRegions::ExpList1D::ExpList1D ( )

The default constructor.

Assumes use of standard segment expansions only. All data storage areas are initialised to empty arrays by the default ExpList constructor.

Definition at line 77 of file ExpList1D.cpp.

References Nektar::MultiRegions::e1D, and Nektar::MultiRegions::ExpList::SetExpType().

                             :
             ExpList()
         {
             SetExpType(e1D);
         }

Nektar::MultiRegions::ExpList1D::ExpList1D	(	const ExpList1D &	In,
		const bool	DeclareCoeffPhysArrays = `true`
	)

The copy constructor.

Creates an identical copy of another ExpList1D object.

Definition at line 87 of file ExpList1D.cpp.

References Nektar::MultiRegions::e1D, and Nektar::MultiRegions::ExpList::SetExpType().

                                                                                   :
             ExpList(In,DeclareCoeffPhysArrays)
         {
             SetExpType(e1D);
         }

Nektar::MultiRegions::ExpList1D::ExpList1D	(	const ExpList1D &	In,
		const std::vector< unsigned int > &	eIDs,
		const bool	DeclareCoeffPhysArrays = `true`,
		const Collections::ImplementationType	ImpType = `Collections::eNoImpType`
	)

Constructor copying only elements defined in eIds.

Definition at line 96 of file ExpList1D.cpp.

References Nektar::MemoryManager< DataType >::AllocateSharedPtr(), Nektar::MultiRegions::ExpList::CreateCollections(), Nektar::MultiRegions::e1D, Nektar::MultiRegions::ExpList::GetExpSize(), Nektar::MultiRegions::ExpList::m_globalOptParam, Nektar::MultiRegions::ExpList::ReadGlobalOptimizationParameters(), Nektar::MultiRegions::ExpList::SetCoeffPhysOffsets(), and Nektar::MultiRegions::ExpList::SetExpType().

                                                                          :
             ExpList(In, eIDs, DeclareCoeffPhysArrays)
         {
             SetExpType(e1D);
             
             // Setup Default optimisation information.
             int nel = GetExpSize();
             m_globalOptParam = MemoryManager<NekOptimize::GlobalOptParam>
                 ::AllocateSharedPtr(nel);
 
             // Allocate storage for data and populate element offset lists.
             SetCoeffPhysOffsets();
 
             ReadGlobalOptimizationParameters();
             CreateCollections(ImpType);
         }

Nektar::MultiRegions::ExpList1D::ExpList1D	(	const LibUtilities::SessionReaderSharedPtr &	pSession,
		const LibUtilities::BasisKey &	Ba,
		const SpatialDomains::MeshGraphSharedPtr &	graph1D,
		const Collections::ImplementationType	ImpType = `Collections::eNoImpType`
	)

Construct an ExpList1D from a given graph.

After initialising the data inherited through MultiRegions::ExpList, populate the expansion list from the segments defined in the supplied SpatialDomains::MeshGraph1D. All expansions in the graph are defined using the same LibUtilities::BasisKey which overrides that specified in graph1D.

See also: ExpList1D::ExpList1D(SpatialDomains::MeshGraph1D&, bool) for details.

Deprecated:

This constructor is no longer required since the basis key is now available from the graph.

Parameters

Ba	BasisKey describing quadrature points and number of modes.
graph1D	Domain and expansion definitions.

Definition at line 132 of file ExpList1D.cpp.

                                                                          :
             ExpList(pSession,graph1D)
         {
             SetExpType(e1D);
 
             int id=0;
             LocalRegions::SegExpSharedPtr seg;
             SpatialDomains::SegGeomSharedPtr SegmentGeom;
 
             const SpatialDomains::ExpansionMap &expansions
                                                     = graph1D->GetExpansions();
 
             // For each element in the mesh, create a segment expansion using
             // the supplied BasisKey and segment geometry.
             SpatialDomains::ExpansionMap::const_iterator expIt;
             for (expIt = expansions.begin(); expIt != expansions.end(); ++expIt)
             {
                 if ((SegmentGeom = boost::dynamic_pointer_cast<
                          SpatialDomains::SegGeom>(
                              expIt->second->m_geomShPtr)))
                 {
                     seg = MemoryManager<LocalRegions::SegExp>
                         ::AllocateSharedPtr(Ba,SegmentGeom);
                     seg->SetElmtId(id++);
                     (*m_exp).push_back(seg);
                 }
                 else
                 {
                     ASSERTL0(false,"dynamic cast to a SegGeom failed");
                 }
             }
 
             // Setup Default optimisation information.
             int nel = GetExpSize();
             m_globalOptParam = MemoryManager<NekOptimize::GlobalOptParam>
                 ::AllocateSharedPtr(nel);
 
             // Allocate storage for data and populate element offset lists.
             SetCoeffPhysOffsets();
 
             m_coeffs = Array<OneD, NekDouble>(m_ncoeffs);
             m_phys   = Array<OneD, NekDouble>(m_npoints);
 
             ReadGlobalOptimizationParameters();
             CreateCollections(ImpType);
         }

Nektar::MultiRegions::ExpList1D::ExpList1D	(	const LibUtilities::SessionReaderSharedPtr &	pSession,
		const SpatialDomains::MeshGraphSharedPtr &	graph1D,
		const bool	DeclareCoeffPhysArrays = `true`,
		const Collections::ImplementationType	ImpType = `Collections::eNoImpType`
	)

This constructor sets up a list of local expansions based on an input graph1D.

Given a mesh graph1D, containing information about the domain and the spectral/hp element expansion, this constructor fills the list of local expansions {m_exp} with the proper expansions, calculates the total number of quadrature points $x_i$ and local expansion coefficients $\hat{u}^e_n$ and allocates memory for the arrays m_coeffs and m_phys.

For each element its corresponding LibUtilities::BasisKey is retrieved and this is used to construct either a standard segment (LocalRegions::SegExp) or a generalised segment (LocalRegions::GenSegExp) which is stored in the list m_exp. Finally, ExpList::SetCoeffPhys is called to initialise the data storage areas and set up the offset arrays.

Parameters

graph1D	A mesh, containing information about the domain and the spectral/hp element expansion.
UseGenSegExp	If true, create general segment expansions instead of just normal segment expansions.

Definition at line 203 of file ExpList1D.cpp.

                                                                          :
             ExpList(pSession,graph1D)
         {
             SetExpType(e1D);
 
             int id=0;
             LocalRegions::SegExpSharedPtr seg;
             SpatialDomains::SegGeomSharedPtr SegmentGeom;
 
             // Retrieve the list of expansions
             const SpatialDomains::ExpansionMap &expansions
                                                     = graph1D->GetExpansions();
 
             // Process each expansion in the graph
             SpatialDomains::ExpansionMap::const_iterator expIt;
             for (expIt = expansions.begin(); expIt != expansions.end(); ++expIt)
             {
                 // Retrieve basis key from expansion
                 LibUtilities::BasisKey bkey = expIt->second->m_basisKeyVector[0];
 
                 if ((SegmentGeom = boost::dynamic_pointer_cast<
                          SpatialDomains::SegGeom>(
                              expIt->second->m_geomShPtr)))
                 {
                     seg = MemoryManager<LocalRegions::SegExp>
                                         ::AllocateSharedPtr(bkey, SegmentGeom);
 
                     // Assign next ID
                     seg->SetElmtId(id++);
 
                     // Add the expansion
                     (*m_exp).push_back(seg);
                 }
                 else
                 {
                     ASSERTL0(false,"dynamic cast to a SegGeom failed");
                 }
             }
 
             // Setup Default optimisation information.
             int nel = GetExpSize();
             m_globalOptParam = MemoryManager<NekOptimize::GlobalOptParam>
                 ::AllocateSharedPtr(nel);
 
             // set up offset arrays.
             SetCoeffPhysOffsets();
 
             if(DeclareCoeffPhysArrays)
             {
                 // Set up m_coeffs, m_phys.
                 m_coeffs = Array<OneD, NekDouble>(m_ncoeffs);
                 m_phys   = Array<OneD, NekDouble>(m_npoints);
             }
 
             ReadGlobalOptimizationParameters();
             CreateCollections(ImpType);
         }

Nektar::MultiRegions::ExpList1D::ExpList1D	(	const LibUtilities::SessionReaderSharedPtr &	pSession,
		const SpatialDomains::MeshGraphSharedPtr &	graph1D,
		const SpatialDomains::CompositeMap &	domain,
		const bool	DeclareCoeffPhysArrays = `true`,
		const std::string	var = `"DefaultVar"`,
		bool	SetToOneSpaceDimension = `false`,
		const Collections::ImplementationType	ImpType = `Collections::eNoImpType`
	)

This constructor sets up a list of local expansions based on an input compositeMap.

Given a mesh graph1D, and the spectral/hp element expansion as well as and separate information about a domain, this constructor fills the list of local expansions {m_exp} with the proper expansions, calculates the total number of quadrature points $x_i$ and local expansion coefficients $\hat{u}^e_n$ and allocates memory for the arrays m_coeffs and m_phys.

For each element its corresponding LibUtilities::BasisKey is retrieved and this is used to construct either a standard segment (LocalRegions::SegExp) or a generalised segment (LocalRegions::GenSegExp) which is stored in the list m_exp. Finally, ExpList::SetCoeffPhys is called to initialise the data storage areas and set up the offset arrays.

Parameters

graph1D	A mesh, containing information about the domain and the spectral/hp element expansion.
UseGenSegExp	If true, create general segment expansions instead of just normal segment expansions.

Definition at line 287 of file ExpList1D.cpp.

                                                                          :
             ExpList(pSession,graph1D)
         {
             int j,id=0;
             LocalRegions::SegExpSharedPtr seg;
             SpatialDomains::SegGeomSharedPtr SegmentGeom;
             SpatialDomains::Composite comp;
             SpatialDomains::CompositeMap::const_iterator compIt;
 
             // Retrieve the list of expansions
             const SpatialDomains::ExpansionMap &expansions
                 = graph1D->GetExpansions(var);
 
             // Process each composite region in domain
             for(compIt = domain.begin(); compIt != domain.end(); ++compIt)
             {
                 comp = compIt->second;
 
                 // Process each expansion in the graph
                 for(j = 0; j < compIt->second->size(); ++j)
                 {
                     SpatialDomains::ExpansionMap::const_iterator expIt;
 
                     if((SegmentGeom = boost::dynamic_pointer_cast<
                             SpatialDomains::SegGeom>(
                                 (*compIt->second)[j])))
                     {
                         // Retrieve basis key from expansion and define expansion
                         if((expIt = expansions.find(SegmentGeom->GetGlobalID())) != expansions.end())
                         {
                             LibUtilities::BasisKey bkey = expIt->second->m_basisKeyVector[0];
                             
                             if(SetToOneSpaceDimension)
                             {
                                 SpatialDomains::SegGeomSharedPtr OneDSegmentGeom = 
                                     SegmentGeom->GenerateOneSpaceDimGeom();
 
                                 seg = MemoryManager<LocalRegions::SegExp>
                                     ::AllocateSharedPtr(bkey, OneDSegmentGeom);
                             }
                             else
                             {
                                 seg = MemoryManager<LocalRegions::SegExp>
                                     ::AllocateSharedPtr(bkey, SegmentGeom);
                             }
                         }
                         else
                         {
                             ASSERTL0(false,"Failed to find basis key");
                         }
                     }
                     else
                     {
                         ASSERTL0(false,"Failed to dynamic cast geometry to SegGeom");
                     }
 
                     // Assign next ID
                     seg->SetElmtId(id++);
 
                     // Add the expansion
                     (*m_exp).push_back(seg);
                 }
             }
 
             // Setup Default optimisation information.
             int nel = GetExpSize();
             m_globalOptParam = MemoryManager<NekOptimize::GlobalOptParam>
                 ::AllocateSharedPtr(nel);
 
             // set up offset arrays.
             SetCoeffPhysOffsets();
 
             if(DeclareCoeffPhysArrays)
             {
                 // Set up m_coeffs, m_phys.
                 m_coeffs = Array<OneD, NekDouble>(m_ncoeffs);
                 m_phys   = Array<OneD, NekDouble>(m_npoints);
             }
 
             ReadGlobalOptimizationParameters();
             CreateCollections(ImpType);
         }

Nektar::MultiRegions::ExpList1D::ExpList1D	(	const LibUtilities::SessionReaderSharedPtr &	pSession,
		const SpatialDomains::CompositeMap &	domain,
		const SpatialDomains::MeshGraphSharedPtr &	graph2D,
		const bool	DeclareCoeffPhysArrays = `true`,
		const std::string	variable = `"DefaultVar"`,
		const Collections::ImplementationType	ImpType = `Collections::eNoImpType`
	)

Specialised constructor for Neumann boundary conditions in DisContField2D and ContField2D.

Fills the list of local expansions with the segments from the 2D mesh specified by domain. This CompositeMap contains a list of Composites which define the Neumann boundary.

See also: ExpList1D::ExpList1D(SpatialDomains::MeshGraph1D&, bool) for details.

Parameters

domain	A domain, comprising of one or more composite regions,
graph2D	A mesh, containing information about the domain and the spectral/hp element expansion.
UseGenSegExp	If true, create general segment expansions instead of just normal segment expansions.

Definition at line 390 of file ExpList1D.cpp.

                                                                          :
             ExpList(pSession,graph2D)
         {
             SetExpType(e1D);
 
             m_graph = graph2D;
 
             int j, id=0;
             SpatialDomains::Composite comp;
             SpatialDomains::CompositeMap::const_iterator compIt;
             SpatialDomains::SegGeomSharedPtr SegmentGeom;
             LocalRegions::SegExpSharedPtr seg;
 
             // Process each composite region.
             for(compIt = domain.begin(); compIt != domain.end(); ++compIt)
             {
                 comp = compIt->second;
                 // Process each expansion in the region.
                 for(j = 0; j < compIt->second->size(); ++j)
                 {
                     if((SegmentGeom = boost::dynamic_pointer_cast<
                             SpatialDomains::SegGeom>(
                                 (*compIt->second)[j])))
                     {
                         // Retrieve the basis key from the expansion.
                         LibUtilities::BasisKey bkey
                             = boost::dynamic_pointer_cast<SpatialDomains::MeshGraph2D>(graph2D)->GetEdgeBasisKey(SegmentGeom, variable);
 
                         seg = MemoryManager<LocalRegions::SegExp>
                                         ::AllocateSharedPtr(bkey, SegmentGeom);
 
                         // Add the segment to the expansion list.
                         seg->SetElmtId(id++);
                         (*m_exp).push_back(seg);
                     }
                     else
                     {
                         ASSERTL0(false,"dynamic cast to a SegGeom failed");
                     }
                 }
 
             }
 
             // Setup Default optimisation information.
             int nel = GetExpSize();
             m_globalOptParam = MemoryManager<NekOptimize::GlobalOptParam>
                 ::AllocateSharedPtr(nel);
 
             // Allocate storage for data and populate element offset lists.
             SetCoeffPhysOffsets();
 
             // Set up m_coeffs, m_phys.
             if(DeclareCoeffPhysArrays)
             {
                 m_coeffs = Array<OneD, NekDouble>(m_ncoeffs);
                 m_phys   = Array<OneD, NekDouble>(m_npoints);
             }
 
             CreateCollections(ImpType);
         }

Nektar::MultiRegions::ExpList1D::ExpList1D	(	const LibUtilities::SessionReaderSharedPtr &	pSession,
		const SpatialDomains::CompositeMap &	domain,
		const SpatialDomains::MeshGraphSharedPtr &	graph1D,
		int	i,
		const bool	DeclareCoeffPhysArrays = `true`,
		const Collections::ImplementationType	ImpType = `Collections::eNoImpType`
	)

Nektar::MultiRegions::ExpList1D::ExpList1D	(	const LibUtilities::SessionReaderSharedPtr &	pSession,
		const Array< OneD, const ExpListSharedPtr > &	bndConstraint,
		const Array< OneD, const SpatialDomains::BoundaryConditionShPtr > &	bndCond,
		const LocalRegions::ExpansionVector &	locexp,
		const SpatialDomains::MeshGraphSharedPtr &	graph2D,
		const PeriodicMap &	periodicEdges,
		const bool	DeclareCoeffPhysArrays = `true`,
		const std::string	variable = `"DefaultVar"`,
		const Collections::ImplementationType	ImpType = `Collections::eNoImpType`
	)

Specialised constructor for trace expansions.

Store expansions for the trace space expansions used in DisContField2D.

Parameters

bndConstraint	Array of ExpList1D objects each containing a 1D spectral/hp element expansion on a single boundary region.
bndCond	Array of BoundaryCondition objects which contain information about the boundary conditions on the different boundary regions.
locexp	Complete domain expansion list.
graph2D	2D mesh corresponding to the expansion list.
periodicEdges	List of periodic edges.
UseGenSegExp	If true, create general segment expansions instead of just normal segment expansions.

Definition at line 472 of file ExpList1D.cpp.

                                                         :
             ExpList(pSession,graph2D)
         {
             int i, j, id, elmtid = 0;
             set<int> edgesDone;
 
             SpatialDomains::Geometry1DSharedPtr segGeom;
             SpatialDomains::Geometry2DSharedPtr ElGeom;
             LocalRegions::SegExpSharedPtr       seg;
             LocalRegions::SegExpSharedPtr       seg_tmp;
             LocalRegions::Expansion1DSharedPtr  exp1D;
             LocalRegions::Expansion2DSharedPtr  exp2D;
 
             SetExpType(e1D);
 
             map<int,int> EdgeDone;
             map<int,int> NormalSet;
 
             LocalRegions::SegExpSharedPtr Seg;
 
             // First loop over boundary conditions to renumber
             // Dirichlet boundaries
             for(i = 0; i < bndCond.num_elements(); ++i)
             {
                 if(bndCond[i]->GetBoundaryConditionType()
                                             == SpatialDomains::eDirichlet)
                 {
                     for(j = 0; j < bndConstraint[i]->GetExpSize(); ++j)
                     {
                         LibUtilities::BasisKey bkey = bndConstraint[i]
                                     ->GetExp(j)->GetBasis(0)->GetBasisKey();
                         exp1D = bndConstraint[i]->GetExp(j)->
                                     as<LocalRegions::Expansion1D>();
                         segGeom = exp1D->GetGeom1D();
 
                         seg = MemoryManager<LocalRegions::SegExp>
                                             ::AllocateSharedPtr(bkey, segGeom);
                         edgesDone.insert(segGeom->GetEid());
 
                         seg->SetElmtId(elmtid++);
                         (*m_exp).push_back(seg);
                     }
                 }
             }
 
             map<int, pair<SpatialDomains::Geometry1DSharedPtr,
                           LibUtilities::BasisKey> > edgeOrders;
             map<int, pair<SpatialDomains::Geometry1DSharedPtr,
                           LibUtilities::BasisKey> >::iterator it;
             
             for(i = 0; i < locexp.size(); ++i)
             {
                 exp2D = locexp[i]->as<LocalRegions::Expansion2D>();
 
                 for(j = 0; j < locexp[i]->GetNedges(); ++j)
                 {
                     segGeom = exp2D->GetGeom2D()->GetEdge(j);
                     id      = segGeom->GetEid();
                     // Ignore Dirichlet edges
                     if (edgesDone.count(id) != 0)
                     {
                         continue;
                     }
 
                     it = edgeOrders.find(id);
 
                     if (it == edgeOrders.end())
                     {
                         edgeOrders.insert(std::make_pair(id, std::make_pair(
                             segGeom, locexp[i]->DetEdgeBasisKey(j))));
                     }
                     else // variable modes/points
                     {
                         LibUtilities::BasisKey edge
                             = locexp[i]->DetEdgeBasisKey(j);
                         LibUtilities::BasisKey existing
                             = it->second.second;
 
                         int np1 = edge    .GetNumPoints();
                         int np2 = existing.GetNumPoints();
                         int nm1 = edge    .GetNumModes ();
                         int nm2 = existing.GetNumModes ();
 
                         if (np2 >= np1 && nm2 >= nm1)
                         {
                             continue;
                         }
                         else if (np2 < np1 && nm2 < nm1)
                         {
                             it->second.second = edge;
                         }
                         else
                         {
                             ASSERTL0(false,
                                 "inappropriate number of points/modes (max "
                                 "num of points is not set with max order)");
                         }
                     }
                 }
             }
 
             LibUtilities::CommSharedPtr vComm =
                 pSession->GetComm()->GetRowComm();
             int nproc = vComm->GetSize(); // number of processors
             int edgepr = vComm->GetRank(); // ID processor
 
             if (nproc > 1)
             {
                 int eCnt = 0;
 
                 // Count the number of edges on each partition
                 for(i = 0; i < locexp.size(); ++i)
                 {
                     eCnt += locexp[i]->GetNedges();
                 }
 
                 // Set up the offset and the array that will contain the list of
                 // edge IDs, then reduce this across processors.
                 Array<OneD, int> edgesCnt(nproc, 0);
                 edgesCnt[edgepr] = eCnt;
                 vComm->AllReduce(edgesCnt, LibUtilities::ReduceSum);
 
                 // Set up offset array.
                 int totEdgeCnt = Vmath::Vsum(nproc, edgesCnt, 1);
                 Array<OneD, int> eTotOffsets(nproc,0);
                 for (i = 1; i < nproc; ++i)
                 {
                     eTotOffsets[i] = eTotOffsets[i-1] + edgesCnt[i-1];
                 }
 
                 // Local list of the edges per element
                 Array<OneD, int> EdgesTotID(totEdgeCnt, 0);
                 Array<OneD, int> EdgesTotNm(totEdgeCnt, 0);
                 Array<OneD, int> EdgesTotPnts(totEdgeCnt, 0);
 
                 int cntr = eTotOffsets[edgepr];
 
                 for(i = 0; i < locexp.size(); ++i)
                 {
                     exp2D = locexp[i]->as<LocalRegions::Expansion2D>();
 
                     int nedges = locexp[i]->GetNedges();
 
                     for(j = 0; j < nedges; ++j, ++cntr)
                     {
                         LibUtilities::BasisKey bkeyEdge =
                                               locexp[i]->DetEdgeBasisKey(j);
                         EdgesTotID  [cntr] = exp2D->GetGeom2D()->GetEid(j);
                         EdgesTotNm  [cntr] = bkeyEdge.GetNumModes();
                         EdgesTotPnts[cntr] = bkeyEdge.GetNumPoints();
                     }
                 }
 
                 vComm->AllReduce(EdgesTotID, LibUtilities::ReduceSum);
                 vComm->AllReduce(EdgesTotNm, LibUtilities::ReduceSum);
                 vComm->AllReduce(EdgesTotPnts, LibUtilities::ReduceSum);
 
                 for (i = 0; i < totEdgeCnt; ++i)
                 {
                     it = edgeOrders.find(EdgesTotID[i]);
 
                     if (it == edgeOrders.end())
                     {
                         continue;
                     }
 
                     LibUtilities::BasisKey existing
                         = it->second.second;
                     LibUtilities::BasisKey edge(
                         existing.GetBasisType(), EdgesTotNm[i],
                         LibUtilities::PointsKey(EdgesTotPnts[i],
                                                 existing.GetPointsType()));
 
 
                     int np1 = edge    .GetNumPoints();
                     int np2 = existing.GetNumPoints();
                     int nm1 = edge    .GetNumModes ();
                     int nm2 = existing.GetNumModes ();
 
                     if (np2 >= np1 && nm2 >= nm1)
                     {
                         continue;
                     }
                     else if (np2 < np1 && nm2 < nm1)
                     {
                         it->second.second = edge;
                     }
                     else
                     {
                         ASSERTL0(false,
                                  "inappropriate number of points/modes (max "
                                  "num of points is not set with max order)");
                     }
                 }
             }
 
             for (it = edgeOrders.begin(); it != edgeOrders.end(); ++it)
             {
                 seg = MemoryManager<LocalRegions::SegExp>
                     ::AllocateSharedPtr(it->second.second, it->second.first);
                 seg->SetElmtId(elmtid++);
                 (*m_exp).push_back(seg);
             }
 
             // Setup Default optimisation information.
             int nel = GetExpSize();
             m_globalOptParam = MemoryManager<NekOptimize::GlobalOptParam>
                 ::AllocateSharedPtr(nel);
 
             // Set up offset information and array sizes
             SetCoeffPhysOffsets();
 
             // Set up m_coeffs, m_phys.
             if(DeclareCoeffPhysArrays)
             {
                 m_coeffs = Array<OneD, NekDouble>(m_ncoeffs);
                 m_phys   = Array<OneD, NekDouble>(m_npoints);
             }
 
             CreateCollections(ImpType);
         }

Nektar::MultiRegions::ExpList1D::~ExpList1D ( )

virtual

Destructor.

Definition at line 706 of file ExpList1D.cpp.

707 {

708 }

Member Function Documentation

void Nektar::MultiRegions::ExpList1D::ParNormalSign ( Array< OneD, NekDouble > & normsign )

Set up the normals on each expansion.

void Nektar::MultiRegions::ExpList1D::PeriodicEval	(	Array< OneD, NekDouble > &	inarray1,
		Array< OneD, NekDouble > &	inarray2,
		NekDouble	h,
		int	nmodes,
		Array< OneD, NekDouble > &	outarray
	)

Evaluates the global spectral/hp expansion at some arbitray set of points.

Given the elemental coefficients $\hat{u}_n^e$ of an expansion, periodically evaluate the spectral/hp expansion $u^{\delta}(\boldsymbol{x})$ at arbitrary points.

Parameters

inarray1	An array of size $N_{\mathrm{eof}}$ containing the local coefficients $\hat{u}_n^e$ .
inarray2	Contains the set of evaluation points.
h	The mesh spacing.
nmodes	The number of polynomial modes for each element (we consider that each element has the same number of polynomial modes).
outarray	Contains the resulting values at the evaluation points

Definition at line 819 of file ExpList1D.cpp.

References Nektar::MultiRegions::ExpList::GetExpSize(), and Polylib::jacobfd().

Referenced by PostProcess().

         {
             int i,j,r;
 
             // Get the number of elements in the domain
             int num_elm = GetExpSize();
 
             // initializing the outarray
             for(i = 0; i < outarray.num_elements(); i++)
             {
                 outarray[i] = 0.0;
             }
 
             // Make a copy for further modification
             int x_size = inarray2.num_elements();
             Array<OneD,NekDouble> x_values_cp(x_size);
 
             // Determining the element to which the x belongs
             Array<OneD,int> x_elm(x_size);
             for(i = 0; i < x_size; i++ )
             {
                 x_elm[i] = (int)floor(inarray2[i]/h);
             }
 
             // Clamp indices periodically
             for(i = 0; i < x_size; i++)
             {
                 while(x_elm[i] < 0)
                 {
                     x_elm[i] += num_elm;
                 }
                 while(x_elm[i] >= num_elm)
                 {
                     x_elm[i] -= num_elm ;
                 }
             }
 
             // Map the values of x to [-1 1] on its interval
             for(i = 0; i < x_size; i++)
             {
                 x_values_cp[i] = (inarray2[i]/h - floor(inarray2[i]/h))*2 - 1.0;
             }
 
             // Evaluate the jocobi polynomials
             // (Evaluating the base at some points other than the quadrature
             // points). Should it be added to the base class????
             Array<TwoD,NekDouble> jacobi_poly(nmodes,x_size);
             for(i = 0; i < nmodes; i++)
             {
                 Polylib::jacobfd(x_size,x_values_cp.get(),
                                     jacobi_poly.get()+i*x_size,NULL,i,0.0,0.0);
             }
 
             // Evaluate the function values
             for(r = 0; r < nmodes; r++)
             {
                 for(j = 0; j < x_size; j++)
                 {
                     int index = ((x_elm[j])*nmodes)+r;
                     outarray[j] += inarray1[index]*jacobi_poly[r][j];
                 }
             }
 
         }

void Nektar::MultiRegions::ExpList1D::PostProcess	(	LibUtilities::KernelSharedPtr	kernel,
		Array< OneD, NekDouble > &	inarray,
		Array< OneD, NekDouble > &	outarray,
		NekDouble	h,
		int	elmId = `0`
	)

Performs the post-processing on a specified element.

To perform post-processing on the entire domain use elmtId = 0.

Parameters

kernel	The post-processing kernel.
inarray	The set of evaluation points.
outarray	Contains the resulting post-processed solution for element elmId.
h	The mesh spacing.
elmId	Optionally specifies which element to perform the post-processing on (0=whole domain).

Definition at line 720 of file ExpList1D.cpp.

References Nektar::MultiRegions::ExpList::GetCoeffs(), Nektar::MultiRegions::ExpList::GetExp(), PeriodicEval(), and Nektar::LibUtilities::PointsManager().

         {
             int i,j,r;
 
             // get the local element expansion of the elmId element
             StdRegions::StdExpansionSharedPtr elmExp = GetExp(elmId);
 
             // Get the quadrature points and weights required for integration
             int quad_npoints = elmExp->GetTotPoints();
             LibUtilities::PointsKey quadPointsKey(quad_npoints,
                                                     elmExp->GetPointsType(0));
             Array<OneD,NekDouble> quad_points
                         = LibUtilities::PointsManager()[quadPointsKey]->GetZ();
             Array<OneD,NekDouble> quad_weights
                         = LibUtilities::PointsManager()[quadPointsKey]->GetW();
 
             // Declare variable for the local kernel breaks
             int kernel_width = kernel->GetKernelWidth();
             Array<OneD,NekDouble> local_kernel_breaks(kernel_width+1);
 
             // Declare variable for the transformed quadrature points
             Array<OneD,NekDouble> mapped_quad_points(quad_npoints);
 
             // For each evaluation point
             for(i = 0; i < inarray.num_elements(); i++)
             {
                 // Move the center of the kernel to the current point
                 kernel->MoveKernelCenter(inarray[i],local_kernel_breaks);
 
                 // Find the mesh breaks under the kernel support
                 Array<OneD,NekDouble> mesh_breaks;
                 kernel->FindMeshUnderKernel(local_kernel_breaks,h,mesh_breaks);
 
                 // Sort the total breaks for integration purposes
                 int total_nbreaks = local_kernel_breaks.num_elements() +
                                     mesh_breaks.num_elements();
                                     // number of the total breaks
                 Array<OneD,NekDouble> total_breaks(total_nbreaks);
                 kernel->Sort(local_kernel_breaks,mesh_breaks,total_breaks);
 
                 // Integrate the product of kernel and function over the total
                 // breaks
                 NekDouble integral_value = 0.0;
                 for(j = 0; j < total_breaks.num_elements()-1; j++)
                 {
                     NekDouble a = total_breaks[j];
                     NekDouble b = total_breaks[j+1];
 
                     // Map the quadrature points to the appropriate interval
                     for(r = 0; r < quad_points.num_elements(); r++)
                     {
                         mapped_quad_points[r]
                                 = (quad_points[r] + 1.0) * 0.5 * (b - a) + a;
                     }
 
                     // Evaluate the function at the transformed quadrature
                     // points
                     Array<OneD,NekDouble> u_value(quad_npoints);
                     Array<OneD,NekDouble> coeffs = GetCoeffs();
 
                     PeriodicEval(coeffs,mapped_quad_points,h,
                                  elmExp->GetBasisNumModes(0),u_value);
 
                     // Evaluate the kernel at the transformed quadrature points
                     Array<OneD,NekDouble> k_value(quad_npoints);
                     kernel->EvaluateKernel(mapped_quad_points,h,k_value);
 
                     // Integrate
                     for(r = 0; r < quad_npoints; r++)
                     {
                         integral_value += (b - a) * 0.5 * k_value[r]
                                                 * u_value[r] * quad_weights[r];
                     }
                 }
                 outarray[i] = integral_value/h;
             }
         }

void Nektar::MultiRegions::ExpList1D::v_GetNormals ( Array< OneD, Array< OneD, NekDouble > > & normals )

protectedvirtual

Populate normals with the normals of all expansions.

For each local element, copy the normals stored in the element list into the array normals.

Parameters

normals Multidimensional array in which to copy normals to. Must have dimension equal to or larger than the spatial dimension of the elements.

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 1047 of file ExpList1D.cpp.

References ASSERTL1, Nektar::MultiRegions::ExpList::GetCoordim(), Nektar::LocalRegions::Expansion1D::GetLeftAdjacentElementExp(), Nektar::LibUtilities::Interp1D(), Nektar::MultiRegions::ExpList::m_exp, Nektar::MultiRegions::ExpList::m_phys_offset, and CellMLToNektar.cellml_metadata::p.

         {
             int i,j,k,e_npoints,offset;
             SpatialDomains::Geometry1DSharedPtr segGeom;
             Array<OneD,Array<OneD,NekDouble> > locnormals;
             Array<OneD,Array<OneD,NekDouble> > locnormals2;
             Array<OneD,Array<OneD,NekDouble> > Norms;
             // Assume whole array is of same coordinate dimension
             int coordim = GetCoordim(0);
 
             ASSERTL1(normals.num_elements() >= coordim,
                      "Output vector does not have sufficient dimensions to "
                      "match coordim");
 
             for (i = 0; i < m_exp->size(); ++i)
             {
                 LocalRegions::Expansion1DSharedPtr loc_exp = (*m_exp)[i]->as<LocalRegions::Expansion1D>();
                 
                 LocalRegions::Expansion2DSharedPtr loc_elmt =
                     loc_exp->GetLeftAdjacentElementExp();
         
                 int edgeNumber = loc_exp->GetLeftAdjacentElementEdge();
             
                 // Get the number of points and normals for this expansion.
                 e_npoints  = (*m_exp)[i]->GetNumPoints(0);
                 
                 locnormals = loc_elmt->GetEdgeNormal(edgeNumber);
         int e_nmodes   = loc_exp->GetBasis(0)->GetNumModes();
                 int loc_nmodes = loc_elmt->GetBasis(0)->GetNumModes();
 
                 if (e_nmodes != loc_nmodes)
                 {
             if (loc_exp->GetRightAdjacentElementEdge() >= 0)
                     {
                 LocalRegions::Expansion2DSharedPtr loc_elmt =
                                        loc_exp->GetRightAdjacentElementExp();
 
             int EdgeNumber = loc_exp->GetRightAdjacentElementEdge();
                         // Serial case: right element is connected so we can
                         // just grab that normal.
                         locnormals = loc_elmt->GetEdgeNormal(EdgeNumber);
 
                         offset = m_phys_offset[i];
 
                         // Process each point in the expansion.
                         for (j = 0; j < e_npoints; ++j)
                         {
                             // Process each spatial dimension and copy the values
                             // into the output array.
                             for (k = 0; k < coordim; ++k)
                             {
                                 normals[k][offset + j] = -locnormals[k][j];
                             }
                         }
                     }
                     else
                     {
                         // Parallel case: need to interpolate normal.
                         Array<OneD, Array<OneD, NekDouble> > normal(coordim);
                         
                         for (int p = 0; p < coordim; ++p)
                         {
                             normal[p] = Array<OneD, NekDouble>(e_npoints,0.0);
                             LibUtilities::PointsKey to_key =
                                 loc_exp->GetBasis(0)->GetPointsKey();
                             LibUtilities::PointsKey from_key =
                                 loc_elmt->GetBasis(0)->GetPointsKey();
                             LibUtilities::Interp1D(from_key,
                                                    locnormals[p],
                                                    to_key,
                                                    normal[p]);
                         }
                         
                         offset = m_phys_offset[i];
 
                         // Process each point in the expansion.
                         for (j = 0; j < e_npoints; ++j)
                         {
                             // Process each spatial dimension and copy the values
                             // into the output array.
                             for (k = 0; k < coordim; ++k)
                             {
                                 normals[k][offset + j] = normal[k][j];
                             }
                         }
                     }
                 }
                 else
                 {
                     // Get the physical data offset for this expansion.
                     offset = m_phys_offset[i];
 
                     // Process each point in the expansion.
                     for (j = 0; j < e_npoints; ++j)
                     {
                         // Process each spatial dimension and copy the values
                         // into the output array.
                         for (k = 0; k < coordim; ++k)
                         {
                             normals[k][offset + j] = locnormals[k][j];
                         }
                     }
                 }
             }
         }

void Nektar::MultiRegions::ExpList1D::v_ReadGlobalOptimizationParameters ( )

privatevirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 1157 of file ExpList1D.cpp.

         {
 //            Array<OneD, int> NumShape(1,0);
 //            NumShape[0] = GetExpSize();
 //
 //            int one = 1;
 //            m_globalOptParam = MemoryManager<NekOptimize::GlobalOptParam>
 //                ::AllocateSharedPtr(m_session,one,NumShape);
         }

void Nektar::MultiRegions::ExpList1D::v_SetUpPhysNormals ( )

privatevirtual

Set up the normals on each expansion.

Sets up the normals on all edges of expansions in the domain.

Parameters

locexp Complete list of domain expansions.

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 922 of file ExpList1D.cpp.

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

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

void Nektar::MultiRegions::ExpList1D::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
	)

protectedvirtual

Upwind the Fwd and Bwd states based on the velocity field given by Vec.

Upwind the left and right states given by the Arrays Fwd and Bwd using the vector quantity Vec and ouput the upwinded value in the array upwind.

Parameters

Vec	Velocity field.
Fwd	Left state.
Bwd	Right state.
Upwind	Output vector.

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 944 of file ExpList1D.cpp.

References ASSERTL1, Nektar::MultiRegions::ExpList::GetCoordim(), Nektar::MultiRegions::ExpList::m_exp, and Nektar::MultiRegions::ExpList::m_phys_offset.

         {
             int i,j,k,e_npoints,offset;
             Array<OneD,NekDouble> normals;
             NekDouble Vn;
 
             // Assume whole array is of same coordimate dimension
             int coordim = GetCoordim(0);
 
             ASSERTL1(Vec.num_elements() >= coordim,
                     "Input vector does not have sufficient dimensions to "
                     "match coordim");
 
             // Process each expansion
             for(i = 0; i < m_exp->size(); ++i)
             {
                 // Get the number of points in the expansion and the normals.
                 e_npoints = (*m_exp)[i]->GetNumPoints(0);
                 normals   = (*m_exp)[i]->GetPhysNormals();
 
                 // Get the physical data offset of the expansion in m_phys.
                 offset = m_phys_offset[i];
 
                 // Compute each data point.
                 for(j = 0; j < e_npoints; ++j)
                 {
                     // Calculate normal velocity.
                     Vn = 0.0;
                     for(k = 0; k < coordim; ++k)
                     {
                         Vn += Vec[k][offset+j]*normals[k*e_npoints + j];
                     }
 
                     // Upwind based on direction of normal velocity.
                     if(Vn > 0.0)
                     {
                         Upwind[offset + j] = Fwd[offset + j];
                     }
                     else
                     {
                         Upwind[offset + j] = Bwd[offset + j];
                     }
                 }
             }
         }

void Nektar::MultiRegions::ExpList1D::v_Upwind	(	const Array< OneD, const NekDouble > &	Vn,
		const Array< OneD, const NekDouble > &	Fwd,
		const Array< OneD, const NekDouble > &	Bwd,
		Array< OneD, NekDouble > &	Upwind
	)

protectedvirtual

Upwind the Fwd and Bwd states based on the one- dimensional normal velocity field given by Vn.

One-dimensional upwind.

See also: ExpList1D::Upwind( const Array<OneD, const Array<OneD, NekDouble> >, const Array<OneD, const NekDouble>, const Array<OneD, const NekDouble>, Array<OneD, NekDouble>, int)

Parameters

Vn	Velocity field.
Fwd	Left state.
Bwd	Right state.
Upwind	Output vector.

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 1007 of file ExpList1D.cpp.

References Nektar::MultiRegions::ExpList::m_exp, and Nektar::MultiRegions::ExpList::m_phys_offset.

         {
             int i,j,e_npoints,offset;
             Array<OneD,NekDouble> normals;
 
             // Process each expansion.
             for(i = 0; i < m_exp->size(); ++i)
             {
                 // Get the number of points and the data offset.
                 e_npoints = (*m_exp)[i]->GetNumPoints(0);
                 offset = m_phys_offset[i];
                 
                 // Process each point in the expansion.
                 for(j = 0; j < e_npoints; ++j)
                 {
                     // Upwind based on one-dimensional velocity.
                     if(Vn[offset + j] > 0.0)
                     {
                         Upwind[offset + j] = Fwd[offset + j];
                     }
                     else
                     {
                         Upwind[offset + j] = Bwd[offset + j];
                     }
                 }
             }
         }

void Nektar::MultiRegions::ExpList1D::v_WriteVtkPieceHeader	(	std::ostream &	outfile,
		int	expansion,
		int	istrip
	)

privatevirtual

const StdRegions::StdExpansionVector &locexp);

Writes out the header for a <PIECE> VTK XML segment describing the geometric information which comprises this element. This includes vertex coordinates for each quadrature point, vertex connectivity information, cell types and cell offset data.

Parameters

outfile Output stream to write data to.

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 1176 of file ExpList1D.cpp.

         {
             int i,j;
             int nquad0 = (*m_exp)[expansion]->GetNumPoints(0);
             int ntot = nquad0;
             int ntotminus = (nquad0-1);
 
             Array<OneD,NekDouble> coords[3];
             coords[0] = Array<OneD,NekDouble>(ntot, 0.0);
             coords[1] = Array<OneD,NekDouble>(ntot, 0.0);
             coords[2] = Array<OneD,NekDouble>(ntot, 0.0);
             (*m_exp)[expansion]->GetCoords(coords[0],coords[1],coords[2]);
 
             outfile << "    <Piece NumberOfPoints=\""
                     << ntot << "\" NumberOfCells=\""
                     << ntotminus << "\">" << endl;
             outfile << "      <Points>" << endl;
             outfile << "        <DataArray type=\"Float64\" "
                     << "NumberOfComponents=\"3\" format=\"ascii\">" << endl;
             outfile << "          ";
             for (i = 0; i < ntot; ++i)
             {
                 for (j = 0; j < 3; ++j)
                 {
                     outfile << setprecision(8) << scientific 
                             << (float)coords[j][i] << " ";
                 }
                 outfile << endl;
             }
             outfile << endl;
             outfile << "        </DataArray>" << endl;
             outfile << "      </Points>" << endl;
             outfile << "      <Cells>" << endl;
             outfile << "        <DataArray type=\"Int32\" "
                     << "Name=\"connectivity\" format=\"ascii\">" << endl;
             for (i = 0; i < nquad0-1; ++i)
             {
                 outfile << i << " " << i+1 << endl;
             }
             outfile << endl;
             outfile << "        </DataArray>" << endl;
             outfile << "        <DataArray type=\"Int32\" "
                     << "Name=\"offsets\" format=\"ascii\">" << endl;
             for (i = 0; i < ntotminus; ++i)
             {
                 outfile << i*2+2 << " ";
             }
             outfile << endl;
             outfile << "        </DataArray>" << endl;
             outfile << "        <DataArray type=\"UInt8\" "
                     << "Name=\"types\" format=\"ascii\">" << endl;
             for (i = 0; i < ntotminus; ++i)
             {
                 outfile << "3 ";
             }
             outfile << endl;
             outfile << "        </DataArray>" << endl;
             outfile << "      </Cells>" << endl;
             outfile << "      <PointData>" << endl;
         }

Member Data Documentation

int Nektar::MultiRegions::ExpList1D::m_firstIntEl

private

Definition at line 202 of file ExpList1D.h.

Array<OneD, NekDouble> Nektar::MultiRegions::ExpList1D::m_normSign

private

Definition at line 204 of file ExpList1D.h.

Public Member Functions

Protected Member Functions

Private Member Functions

Private Attributes

Additional Inherited Members

Detailed Description

Constructor & Destructor Documentation

Member Function Documentation

Member Data Documentation