This class is the abstraction of a global discontinuous two- dimensional spectral/hp element expansion which approximates the solution of a set of partial differential equations. More...

#include <DisContField1D.h>

Inheritance diagram for Nektar::MultiRegions::DisContField1D:

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Collaboration diagram for Nektar::MultiRegions::DisContField1D:

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Public Member Functions
	DisContField1D ()
	Default constructor. More...

	DisContField1D (const LibUtilities::SessionReaderSharedPtr &pSession, const SpatialDomains::MeshGraphSharedPtr &graph1D, const std::string &variable, const bool SetUpJustDG=true, const Collections::ImplementationType ImpType=Collections::eNoImpType)
	Constructs a 1D discontinuous field based on a mesh and boundary conditions. More...

	DisContField1D (const LibUtilities::SessionReaderSharedPtr &pSession, const SpatialDomains::MeshGraphSharedPtr &graph1D, const SpatialDomains::CompositeMap &domain, const SpatialDomains::BoundaryConditions &Allbcs, const std::string &variable, bool SetToOneSpaceDimensions=false, const Collections::ImplementationType ImpType=Collections::eNoImpType)
	Constructor for a DisContField1D from a List of subdomains New Constructor for arterial network. More...

	DisContField1D (const DisContField1D &In)
	Constructs a 1D discontinuous field based on an existing field. More...

	DisContField1D (const ExpList1D &In)
	Constructs a 1D discontinuous field based on an existing field. (needed in order to use ContField( const ExpList1D &In) constructor. More...

virtual	~DisContField1D ()
	Destructor. More...

GlobalLinSysSharedPtr	GetGlobalBndLinSys (const GlobalLinSysKey &mkey)
	For a given key, returns the associated global linear system. More...

std::vector< bool > &	GetNegatedFluxNormal (void)

Public Member Functions inherited from Nektar::MultiRegions::ExpList1D
	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	GenerateBoundaryConditionExpansion (const SpatialDomains::MeshGraphSharedPtr &graph1D, const SpatialDomains::BoundaryConditions &bcs, const std::string variable)
	Discretises the boundary conditions. More...

void	FindPeriodicVertices (const SpatialDomains::BoundaryConditions &bcs, const std::string variable)
	Generate a associative map of periodic vertices in a mesh. More...

virtual ExpListSharedPtr &	v_GetTrace ()

virtual AssemblyMapDGSharedPtr &	v_GetTraceMap (void)

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

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

virtual void	v_ExtractTracePhys (const Array< OneD, const NekDouble > &inarray, Array< OneD, NekDouble > &outarray)
	This method extracts the trace (verts in 1D) from the field inarray and puts the values in outarray. More...

void	SetBoundaryConditionExpansion (const SpatialDomains::MeshGraphSharedPtr &graph1D, const SpatialDomains::BoundaryConditions &bcs, const std::string variable, Array< OneD, MultiRegions::ExpListSharedPtr > &bndCondExpansions, Array< OneD, SpatialDomains::BoundaryConditionShPtr > &bndConditions)
	Populates the list of boundary condition expansions. More...

void	SetMultiDomainBoundaryConditionExpansion (const SpatialDomains::MeshGraphSharedPtr &graph1D, const SpatialDomains::BoundaryConditions &bcs, const std::string variable, Array< OneD, MultiRegions::ExpListSharedPtr > &bndCondExpansions, Array< OneD, SpatialDomains::BoundaryConditionShPtr > &bndConditions, int subdomain)
	Populates the list of boundary condition expansions in multidomain case. More...

void	GenerateFieldBnd1D (SpatialDomains::BoundaryConditions &bcs, const std::string variable)

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

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

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

virtual MultiRegions::ExpListSharedPtr &	v_UpdateBndCondExpansion (int i)

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

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

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

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

virtual void	v_EvaluateBoundaryConditions (const NekDouble time=0.0, const std::string varName="", const NekDouble x2_in=NekConstants::kNekUnsetDouble, const NekDouble x3_in=NekConstants::kNekUnsetDouble)
	Evaluate all boundary conditions at a given time.. More...

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

Protected Member Functions inherited from Nektar::MultiRegions::ExpList1D
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 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_AddFwdBwdTraceIntegral (const Array< OneD, const NekDouble > &Fwd, const Array< OneD, const NekDouble > &Bwd, Array< OneD, NekDouble > &outarray)

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

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

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

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

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

virtual void	v_FillBndCondFromField ()

virtual void	v_FillBndCondFromField (const int nreg)

virtual void	v_LocalToGlobal (bool UseComm)

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

virtual void	v_GlobalToLocal (void)

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

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

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

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

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

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

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

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

virtual void	v_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_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)

Protected Attributes
int	m_numDirBndCondExpansions
	The number of boundary segments on which Dirichlet boundary conditions are imposed. More...

Array< OneD, MultiRegions::ExpListSharedPtr >	m_bndCondExpansions
	Discretised boundary conditions. More...

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

GlobalLinSysMapShPtr	m_globalBndMat
	Global boundary matrix. More...

ExpListSharedPtr	m_trace
	Trace space storage for points between elements. More...

AssemblyMapDGSharedPtr	m_traceMap
	Local to global DG mapping for trace space. More...

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

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

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

std::vector< int >	m_periodicBwdCopy

std::vector< bool >	m_leftAdjacentVerts

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...

Private Member Functions
void	SetUpDG (const std::string &variable)

bool	IsLeftAdjacentVertex (const int n, const int e)

SpatialDomains::BoundaryConditionsSharedPtr	GetDomainBCs (const SpatialDomains::CompositeMap &domain, const SpatialDomains::BoundaryConditions &Allbcs, const std::string &variable)

Private Attributes
std::vector< bool >	m_negatedFluxNormal

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)

Detailed Description

This class is the abstraction of a global discontinuous two- dimensional spectral/hp element expansion which approximates the solution of a set of partial differential equations.

This class augments the list of local expansions inherited from ExpList1D with boundary conditions. Inter-element boundaries are handled using an discontinuous Galerkin scheme.

Definition at line 55 of file DisContField1D.h.

Constructor & Destructor Documentation

Nektar::MultiRegions::DisContField1D::DisContField1D ( )

Default constructor.

Constructs an empty expansion list with no boundary conditions.

Definition at line 58 of file DisContField1D.cpp.

                                       :
             ExpList1D(),
             m_bndCondExpansions(),
             m_bndConditions()
         {
         }

Nektar::MultiRegions::DisContField1D::DisContField1D	(	const LibUtilities::SessionReaderSharedPtr &	pSession,
		const SpatialDomains::MeshGraphSharedPtr &	graph1D,
		const std::string &	variable,
		const bool	SetUpJustDG = `true`,
		const Collections::ImplementationType	ImpType = `Collections::eNoImpType`
	)

Constructs a 1D discontinuous field based on a mesh and boundary conditions.

An expansion list for the boundary expansions is generated first for the field. These are subsequently evaluated for time zero. The trace map is then constructed.

Parameters

graph1D	A mesh, containing information about the domain and the spectral/hp element expansions.
bcs	Information about the enforced boundary conditions.
variable	The session variable associated with the boundary conditions to enforce.
solnType	Type of global system to use.

Definition at line 78 of file DisContField1D.cpp.

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

             : ExpList1D(pSession,graph1D,true, ImpType),
               m_bndCondExpansions(),
               m_bndConditions()
         {
             if (variable.compare("DefaultVar") != 0)
             {
                 SpatialDomains::BoundaryConditions bcs(m_session, graph1D);
 
                 GenerateBoundaryConditionExpansion(graph1D,bcs,variable);
                 EvaluateBoundaryConditions(0.0, variable);
                 ApplyGeomInfo();
                 FindPeriodicVertices(bcs,variable);
             }
 
             if(SetUpJustDG)
             {
                 SetUpDG(variable);
             }
             else
             {
                 int i;
                 Array<OneD, int> ElmtID, VertexID;
                 GetBoundaryToElmtMap(ElmtID, VertexID);
 
                 for(i = 0; i < m_bndCondExpansions.num_elements(); ++i)
                 {
                     MultiRegions::ExpListSharedPtr locExpList;
                     locExpList = m_bndCondExpansions[i];
 
                     LocalRegions::Expansion1DSharedPtr exp1d =
                             (*m_exp)[ElmtID[i]]->
                                     as<LocalRegions::Expansion1D>();
                     LocalRegions::Expansion0DSharedPtr exp0d =
                             locExpList->GetExp(0)->
                                     as<LocalRegions::Expansion0D>();
 
                     exp0d->SetAdjacentElementExp(VertexID[i], exp1d);
                 }
                 
                 SetUpPhysNormals();
             }
 
         }

Nektar::MultiRegions::DisContField1D::DisContField1D	(	const LibUtilities::SessionReaderSharedPtr &	pSession,
		const SpatialDomains::MeshGraphSharedPtr &	graph1D,
		const SpatialDomains::CompositeMap &	domain,
		const SpatialDomains::BoundaryConditions &	Allbcs,
		const std::string &	variable,
		bool	SetToOneSpaceDimension = `false`,
		const Collections::ImplementationType	ImpType = `Collections::eNoImpType`
	)

Constructor for a DisContField1D from a List of subdomains New Constructor for arterial network.

Constructor for use in multidomain computations where a domain list can be passed instead of graph1D

Parameters

domain Subdomain specified in the inputfile from which the DisContField1D is set up

Definition at line 452 of file DisContField1D.cpp.

References Nektar::MultiRegions::ExpList::ApplyGeomInfo(), Nektar::MultiRegions::ExpList::EvaluateBoundaryConditions(), FindPeriodicVertices(), GenerateBoundaryConditionExpansion(), GetDomainBCs(), and SetUpDG().

                                                                 :
             ExpList1D(pSession,graph1D,domain, true,variable,SetToOneSpaceDimension,ImpType),
             m_bndCondExpansions(),
             m_bndConditions()
         {
             if (variable.compare("DefaultVar") != 0)
             {
                 SpatialDomains::BoundaryConditionsSharedPtr DomBCs = GetDomainBCs(domain,Allbcs,variable);
 
                 GenerateBoundaryConditionExpansion(graph1D,*DomBCs,variable);
                 EvaluateBoundaryConditions(0.0, variable);
                 ApplyGeomInfo();
                 FindPeriodicVertices(*DomBCs,variable);
             }
 
             SetUpDG(variable);
         }

Nektar::MultiRegions::DisContField1D::DisContField1D ( const DisContField1D & In )

Constructs a 1D discontinuous field based on an existing field.

Constructs a field as a copy of an existing field.

Parameters

In	Existing DisContField1D object to copy.

Definition at line 481 of file DisContField1D.cpp.

                                                               :
             ExpList1D(In),
             m_bndCondExpansions(In.m_bndCondExpansions),
             m_bndConditions(In.m_bndConditions),
             m_globalBndMat(In.m_globalBndMat),
             m_trace(In.m_trace),
             m_traceMap(In.m_traceMap),
             m_boundaryVerts(In.m_boundaryVerts),
             m_periodicVerts(In.m_periodicVerts),
             m_periodicFwdCopy(In.m_periodicFwdCopy),
             m_periodicBwdCopy(In.m_periodicBwdCopy),
             m_leftAdjacentVerts(In.m_leftAdjacentVerts)
         {
         }

Nektar::MultiRegions::DisContField1D::DisContField1D ( const ExpList1D & In )

Constructs a 1D discontinuous field based on an existing field. (needed in order to use ContField( const ExpList1D &In) constructor.

Constructs a field as a copy of an existing explist1D field.

Parameters

In	Existing ExpList1D object to copy.

Definition at line 501 of file DisContField1D.cpp.

                                                          :
             ExpList1D(In)
     {
     }

Nektar::MultiRegions::DisContField1D::~DisContField1D ( )

virtual

Destructor.

Definition at line 509 of file DisContField1D.cpp.

510 {

511 }

Member Function Documentation

void Nektar::MultiRegions::DisContField1D::FindPeriodicVertices	(	const SpatialDomains::BoundaryConditions &	bcs,
		const std::string	variable
	)

protected

Generate a associative map of periodic vertices in a mesh.

Parameters

graph1D	A mesh containing information about the domain and the spectral/hp element expansion.
bcs	Information about the boundary conditions.
variable	Specifies the field.
periodicVertices	Map into which the list of periodic vertices is placed.

Definition at line 573 of file DisContField1D.cpp.

References ASSERTL0, Nektar::StdRegions::eNoOrientation, Nektar::SpatialDomains::ePeriodic, Nektar::MultiRegions::ExpList::GetBoundaryCondition(), Nektar::SpatialDomains::BoundaryConditions::GetBoundaryConditions(), Nektar::SpatialDomains::BoundaryConditions::GetBoundaryRegions(), Nektar::iterator, Nektar::MultiRegions::ExpList::m_graph, m_periodicVerts, Nektar::MultiRegions::ExpList::m_session, CellMLToNektar.cellml_metadata::p, Nektar::LibUtilities::ReduceSum, and Vmath::Vsum().

Referenced by DisContField1D().

         {
             const SpatialDomains::BoundaryRegionCollection &bregions
                     = bcs.GetBoundaryRegions();
             const SpatialDomains::BoundaryConditionCollection &bconditions
                     = bcs.GetBoundaryConditions();
 
             SpatialDomains::MeshGraph1DSharedPtr graph1D
                 = boost::dynamic_pointer_cast<
                     SpatialDomains::MeshGraph1D>(m_graph);
             SpatialDomains::BoundaryRegionCollection::const_iterator it;
 
             LibUtilities::CommSharedPtr vComm =
                 m_session->GetComm()->GetRowComm();
 
             int i, region1ID, region2ID;
 
             SpatialDomains::BoundaryConditionShPtr locBCond;
             
             map<int,int> BregionToVertMap;
 
             // Construct list of all periodic Region and their global vertex on
             // this process.
             for (it = bregions.begin(); it != bregions.end(); ++it)
             {
                 locBCond = GetBoundaryCondition(bconditions, it->first, variable);
                 
                 if (locBCond->GetBoundaryConditionType()
                         != SpatialDomains::ePeriodic)
                 {
                     continue;
                 }
                                 
                 int id = (*(it->second->begin()->second))[0]->GetGlobalID();
 
                 BregionToVertMap[it->first] = id;
             }
 
             map<int,int>::iterator iit;
             set<int> islocal;
 
             int n = vComm->GetSize();
             int p = vComm->GetRank();
 
             Array<OneD, int> nregions(n, 0);
             nregions[p] = BregionToVertMap.size();
             vComm->AllReduce(nregions, LibUtilities::ReduceSum);
 
             int totRegions = Vmath::Vsum(n, nregions, 1);
 
             Array<OneD, int> regOffset(n, 0);
 
             for (i = 1; i < n; ++i)
             {
                 regOffset[i] = regOffset[i-1] + nregions[i-1];
             }
 
             Array<OneD, int> bregmap(totRegions, 0);
             Array<OneD, int> bregid (totRegions, 0);
             for(i = regOffset[p], iit = BregionToVertMap.begin();
                 iit != BregionToVertMap.end(); ++iit, ++i)
             {
                 bregid [i] = iit->first;
                 bregmap[i] = iit->second;
                 islocal.insert(iit->first);
             }
 
             vComm->AllReduce(bregmap, LibUtilities::ReduceSum);
             vComm->AllReduce(bregid,  LibUtilities::ReduceSum);
 
             for (int i = 0; i < totRegions; ++i)
             {
                 BregionToVertMap[bregid[i]] = bregmap[i];
             }
 
             // Construct list of all periodic pairs local to this process.
             for (it = bregions.begin(); it != bregions.end(); ++it)
             {
                 locBCond = GetBoundaryCondition(bconditions, it->first, variable);
                 
                 if (locBCond->GetBoundaryConditionType()
                         != SpatialDomains::ePeriodic)
                 {
                     continue;
                 }
 
                 // Identify periodic boundary region IDs.
                 region1ID = it->first;
                 region2ID = boost::static_pointer_cast<
                     SpatialDomains::PeriodicBoundaryCondition>(
                         locBCond)->m_connectedBoundaryRegion;
 
                 ASSERTL0(BregionToVertMap.count(region1ID) != 0, 
                          "Cannot determine vertex of region1ID");
 
                 ASSERTL0(BregionToVertMap.count(region2ID) != 0, 
                          "Cannot determine vertex of region2ID");
 
                 PeriodicEntity ent(BregionToVertMap[region2ID],
                                    StdRegions::eNoOrientation,
                                    islocal.count(region2ID) != 0);
 
                 m_periodicVerts[BregionToVertMap[region1ID]].push_back(ent);
             }
         }

void Nektar::MultiRegions::DisContField1D::GenerateBoundaryConditionExpansion	(	const SpatialDomains::MeshGraphSharedPtr &	graph1D,
		const SpatialDomains::BoundaryConditions &	bcs,
		const std::string	variable
	)

protected

Discretises the boundary conditions.

Generate the boundary condition expansion list

Parameters

graph1D	A mesh, containing information about the domain and the spectral/hp element expansions.
bcs	Information about the enforced boundary conditions.
variable	The session variable associated with the boundary conditions to enforce.

Definition at line 523 of file DisContField1D.cpp.

References Nektar::SpatialDomains::ePeriodic, Nektar::MultiRegions::ExpList::GetBoundaryCondition(), Nektar::SpatialDomains::BoundaryConditions::GetBoundaryConditions(), Nektar::SpatialDomains::BoundaryConditions::GetBoundaryRegions(), Nektar::iterator, m_bndCondExpansions, m_bndConditions, and SetBoundaryConditionExpansion().

Referenced by DisContField1D().

         {
             int cnt  = 0;
 
             const SpatialDomains::BoundaryRegionCollection &bregions
                                                 = bcs.GetBoundaryRegions();
             const SpatialDomains::BoundaryConditionCollection &bconditions
                                                 = bcs.GetBoundaryConditions();
             SpatialDomains::BoundaryRegionCollection::const_iterator it;
 
             // count the number of non-periodic boundary points
             for (it = bregions.begin(); it != bregions.end(); ++it)
             {
                 const SpatialDomains::BoundaryConditionShPtr boundaryCondition =
                     GetBoundaryCondition(bconditions, it->first, variable);
                 if (boundaryCondition->GetBoundaryConditionType() !=
                     SpatialDomains::ePeriodic )
                 {
                     SpatialDomains::BoundaryRegion::iterator bregionIt;
                     for (bregionIt  = it->second->begin();
                          bregionIt != it->second->end(); bregionIt++)
                     {
                         cnt += bregionIt->second->size();
                     }
                 }
             }           
 
             m_bndCondExpansions
                     = Array<OneD,MultiRegions::ExpListSharedPtr>(cnt);
 
             m_bndConditions
                     = Array<OneD,SpatialDomains::BoundaryConditionShPtr>(cnt);
 
             SetBoundaryConditionExpansion(graph1D,bcs,variable,
                                            m_bndCondExpansions,
                                            m_bndConditions);
         }

void Nektar::MultiRegions::DisContField1D::GenerateFieldBnd1D	(	SpatialDomains::BoundaryConditions &	bcs,
		const std::string	variable
	)

protected

SpatialDomains::BoundaryConditionsSharedPtr Nektar::MultiRegions::DisContField1D::GetDomainBCs	(	const SpatialDomains::CompositeMap &	domain,
		const SpatialDomains::BoundaryConditions &	Allbcs,
		const std::string &	variable
	)

private

Definition at line 342 of file DisContField1D.cpp.

References Nektar::MemoryManager< DataType >::AllocateSharedPtr(), ASSERTL1, Nektar::SpatialDomains::BoundaryConditions::GetBoundaryConditions(), Nektar::SpatialDomains::BoundaryConditions::GetBoundaryRegions(), Nektar::iterator, and Nektar::MultiRegions::ExpList::m_session.

Referenced by DisContField1D().

         {            
             SpatialDomains::BoundaryConditionsSharedPtr returnval;
             
             returnval = MemoryManager<SpatialDomains::BoundaryConditions>::AllocateSharedPtr();
             
             SpatialDomains::BoundaryRegion::iterator bregionIt;
             map<int,int> GeometryToRegionsMap;
 
             SpatialDomains::BoundaryRegionCollection::const_iterator it;
 
             const SpatialDomains::BoundaryRegionCollection &bregions
                 = Allbcs.GetBoundaryRegions();
             const SpatialDomains::BoundaryConditionCollection &bconditions
                 = Allbcs.GetBoundaryConditions();
 
             // Set up a map of all boundary regions
             for(it = bregions.begin(); it != bregions.end(); ++it)
             {
                 SpatialDomains::BoundaryRegion::iterator bregionIt;
                 for (bregionIt  = it->second->begin();
                      bregionIt != it->second->end(); bregionIt++)
                 {
                     // can assume that all regions only contain one point in 1D
                     // Really do not need loop above
                     int id = (*(bregionIt->second))[0]->GetGlobalID();
                     GeometryToRegionsMap[id] = it->first;
                 }
             }
 
             SpatialDomains::CompositeMapConstIter domIt; 
             map<int,SpatialDomains::GeometrySharedPtr> EndOfDomain;
 
             // Now find out which points in domain have only one vertex
             for(domIt = domain.begin(); domIt != domain.end(); ++domIt)
             {
                 SpatialDomains::Composite geomvector = domIt->second; 
                 for(int i = 0; i < geomvector->size(); ++i)
                 {
                     for(int j = 0; j < 2; ++j)
                     {
                         int vid = (*geomvector)[i]->GetVid(j); 
                         if(EndOfDomain.count(vid) == 0)
                         {
                             EndOfDomain[vid] = (*geomvector)[i]->GetVertex(j);
                         }
                         else
                         {
                             EndOfDomain.erase(vid);
                         }
                     }
                 }
             }
             ASSERTL1(EndOfDomain.size() == 2,"Did not find two ends of domain");
              
             map<int,SpatialDomains::GeometrySharedPtr>::iterator regIt;
         int numNewBc = 1;
             for(regIt = EndOfDomain.begin(); regIt != EndOfDomain.end(); ++regIt)
             {
                 if(GeometryToRegionsMap.count(regIt->first) != 0) // Set up boundary condition up
                 {
                     map<int,int>::iterator iter = GeometryToRegionsMap.find(regIt->first);
                     ASSERTL1(iter != GeometryToRegionsMap.end(),"Failied to find GeometryToRegionMap");
                     int regionId = iter->second;
                     SpatialDomains::BoundaryRegionCollection::const_iterator bregionsIter = bregions.find(regionId);
                     ASSERTL1(bregionsIter != bregions.end(),"Failed to find boundary region");
                     SpatialDomains::BoundaryRegionShPtr breg = bregionsIter->second;
                     returnval->AddBoundaryRegions   (regionId,breg);
 
                     SpatialDomains::BoundaryConditionCollection::const_iterator bconditionsIter = bconditions.find(regionId);
                     ASSERTL1(bconditionsIter != bconditions.end(),"Failed to find boundary collection");
                     SpatialDomains::BoundaryConditionMapShPtr bcond = bconditionsIter->second;
                     returnval->AddBoundaryConditions(regionId,bcond);
                 }
                 else // Set up an undefined region. 
                 {
                     SpatialDomains::BoundaryRegionShPtr breg(MemoryManager<SpatialDomains::BoundaryRegion>::AllocateSharedPtr());
                     
                     // Set up Composite (GemetryVector) to contain vertex and put into bRegion 
                     SpatialDomains::Composite gvec(MemoryManager<SpatialDomains::GeometryVector>::AllocateSharedPtr());
                     gvec->push_back(regIt->second);
                     (*breg)[regIt->first] = gvec;
 
                     returnval->AddBoundaryRegions(bregions.size()+numNewBc,breg);
 
                     SpatialDomains::BoundaryConditionMapShPtr bCondition = MemoryManager<SpatialDomains::BoundaryConditionMap>::AllocateSharedPtr();
 
                     // Set up just boundary condition for this variable. 
                     SpatialDomains::BoundaryConditionShPtr notDefinedCondition(MemoryManager<SpatialDomains::NotDefinedBoundaryCondition>::AllocateSharedPtr(m_session, "0"));
                     (*bCondition)[variable] = notDefinedCondition;
                     
                     returnval->AddBoundaryConditions(bregions.size()+numNewBc,bCondition);
             ++numNewBc;
 
                 }
             }
             
             return returnval; 
         } 

GlobalLinSysSharedPtr Nektar::MultiRegions::DisContField1D::GetGlobalBndLinSys ( const GlobalLinSysKey & mkey )

For a given key, returns the associated global linear system.

Definition at line 754 of file DisContField1D.cpp.

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

Referenced by v_HelmSolve().

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

vector< bool > & Nektar::MultiRegions::DisContField1D::GetNegatedFluxNormal ( void )

Definition at line 786 of file DisContField1D.cpp.

References Nektar::MultiRegions::ExpList::GetExpSize(), m_negatedFluxNormal, and m_traceMap.

Referenced by v_AddTraceIntegral().

         {
             if(m_negatedFluxNormal.size() == 0)
             {
                 Array<OneD, Array<OneD, LocalRegions::ExpansionSharedPtr> >
                     &elmtToTrace = m_traceMap->GetElmtToTrace();
 
                 m_negatedFluxNormal.resize(2*GetExpSize());
                 
                 for(int i = 0; i < GetExpSize(); ++i)
                 {
 
                     for(int v = 0; v < 2; ++v)
                     {
                         
                         LocalRegions::Expansion0DSharedPtr vertExp =
                             elmtToTrace[i][v]->as<LocalRegions::Expansion0D>();
 
                         if(vertExp->GetLeftAdjacentElementExp()->GetGeom()->GetGlobalID() != (*m_exp)[i]->GetGeom()->GetGlobalID())
                         {
                             m_negatedFluxNormal[2*i+v] = true;
                         }
                         else
                         {
                             m_negatedFluxNormal[2*i+v] = false;
                         }
                     }
                 }
 
             }
 
             return m_negatedFluxNormal;
         }

bool Nektar::MultiRegions::DisContField1D::IsLeftAdjacentVertex	(	const int	n,
		const int	e
	)

private

Definition at line 287 of file DisContField1D.cpp.

References ASSERTL2, Nektar::iterator, m_boundaryVerts, Nektar::MultiRegions::ExpList::m_exp, m_periodicVerts, m_trace, and m_traceMap.

Referenced by SetUpDG().

         {
             set<int>::iterator it;
             LocalRegions::Expansion0DSharedPtr traceEl = 
                 m_traceMap->GetElmtToTrace()[n][e]->as<LocalRegions::Expansion0D>();
 
             
             bool fwd = true;
             if (traceEl->GetLeftAdjacentElementVertex () == -1 ||
                 traceEl->GetRightAdjacentElementVertex() == -1)
             {
                 // Boundary edge (1 connected element). Do nothing in
                 // serial.
                 it = m_boundaryVerts.find(traceEl->GetElmtId());
                 
                 // If the edge does not have a boundary condition set on
                 // it, then assume it is a partition edge or periodic.
                 if (it == m_boundaryVerts.end())
                 {
                     int traceGeomId = traceEl->GetGeom0D()->GetGlobalID();
                     PeriodicMap::iterator pIt = m_periodicVerts.find(
                         traceGeomId);
 
                     if (pIt != m_periodicVerts.end() && !pIt->second[0].isLocal)
                     {
                         fwd = traceGeomId == min(traceGeomId,pIt->second[0].id);
                     }
                     else
                     {
                         int offset = m_trace->GetPhys_Offset(traceEl->GetElmtId());
                         fwd = m_traceMap->
                             GetTraceToUniversalMapUnique(offset) >= 0;
                     }
                 }
             }
             else if (traceEl->GetLeftAdjacentElementVertex () != -1 &&
                      traceEl->GetRightAdjacentElementVertex() != -1)
             {
                 // Non-boundary edge (2 connected elements).
                 fwd = dynamic_cast<Nektar::StdRegions::StdExpansion*>
                     (traceEl->GetLeftAdjacentElementExp().get()) ==
                     (*m_exp)[n].get();
             }
             else
             {
                 ASSERTL2(false, "Unconnected trace element!");
             }
             
             return fwd;
         }

void Nektar::MultiRegions::DisContField1D::SetBoundaryConditionExpansion	(	const SpatialDomains::MeshGraphSharedPtr &	graph1D,
		const SpatialDomains::BoundaryConditions &	bcs,
		const std::string	variable,
		Array< OneD, MultiRegions::ExpListSharedPtr > &	bndCondExpansions,
		Array< OneD, SpatialDomains::BoundaryConditionShPtr > &	bndConditions
	)

protected

Populates the list of boundary condition expansions.

Parameters

graph1D	A mesh containing information about the domain and the Spectral/hp element expansion.
bcs	Information about the boundary conditions.
variable	Specifies the field.
bndCondExpansions	Array of ExpList1D objects each containing a 1D spectral/hp element expansion on a single boundary region.
bncConditions	Array of BoundaryCondition objects which contain information about the boundary conditions on the different boundary regions.

Definition at line 694 of file DisContField1D.cpp.

References Nektar::MemoryManager< DataType >::AllocateSharedPtr(), ASSERTL0, Nektar::SpatialDomains::ePeriodic, Nektar::MultiRegions::ExpList::GetBoundaryCondition(), Nektar::SpatialDomains::BoundaryConditions::GetBoundaryConditions(), Nektar::SpatialDomains::BoundaryConditions::GetBoundaryRegions(), and Nektar::iterator.

Referenced by GenerateBoundaryConditionExpansion().

         {
             int k;
             int cnt  = 0;
 
             const SpatialDomains::BoundaryRegionCollection &bregions
                 = bcs.GetBoundaryRegions();
             const SpatialDomains::BoundaryConditionCollection &bconditions
                 = bcs.GetBoundaryConditions();
             SpatialDomains::BoundaryRegionCollection::const_iterator it;
             
             MultiRegions::ExpList0DSharedPtr         locPointExp;
             SpatialDomains::BoundaryConditionShPtr   locBCond;
             SpatialDomains::PointGeomSharedPtr vert;
 
             cnt = 0;
             for (it = bregions.begin(); it != bregions.end(); ++it)
             {
                 locBCond = GetBoundaryCondition(bconditions, it->first, variable);
 
                 if (locBCond->GetBoundaryConditionType() !=
                     SpatialDomains::ePeriodic)
                 {
                     SpatialDomains::BoundaryRegion::iterator bregionIt;
                     for (bregionIt  = it->second->begin();
                          bregionIt != it->second->end(); bregionIt++)
                     {
                         for (k = 0; k < bregionIt->second->size(); k++)
                         {
                             if((vert = boost::dynamic_pointer_cast
                                     <SpatialDomains::PointGeom>(
                                         (*bregionIt->second)[k])))
                             {
                                 locPointExp
                                     = MemoryManager<MultiRegions::ExpList0D>
                                         ::AllocateSharedPtr(vert);
                                 bndCondExpansions[cnt]  = locPointExp;
                                 bndConditions[cnt++]    = locBCond;
                             }
                             else
                             {
                                 ASSERTL0(false,
                                     "dynamic cast to a vertex failed");
                             }
                         }
                     }
                 }
             }
         }

void Nektar::MultiRegions::DisContField1D::SetMultiDomainBoundaryConditionExpansion	(	const SpatialDomains::MeshGraphSharedPtr &	graph1D,
		const SpatialDomains::BoundaryConditions &	bcs,
		const std::string	variable,
		Array< OneD, MultiRegions::ExpListSharedPtr > &	bndCondExpansions,
		Array< OneD, SpatialDomains::BoundaryConditionShPtr > &	bndConditions,
		int	subdomain
	)

protected

Populates the list of boundary condition expansions in multidomain case.

void Nektar::MultiRegions::DisContField1D::SetUpDG ( const std::string & variable )

private

Definition at line 128 of file DisContField1D.cpp.

References Nektar::MemoryManager< DataType >::AllocateSharedPtr(), ASSERTL0, ASSERTL1, Nektar::SpatialDomains::ePeriodic, Nektar::MultiRegions::_PeriodicEntity::id, IsLeftAdjacentVertex(), Nektar::MultiRegions::_PeriodicEntity::isLocal, Nektar::iterator, m_bndCondExpansions, m_bndConditions, m_boundaryVerts, Nektar::MultiRegions::ExpList::m_exp, m_globalBndMat, Nektar::MultiRegions::ExpList::m_graph, m_leftAdjacentVerts, m_periodicBwdCopy, m_periodicFwdCopy, m_periodicVerts, Nektar::MultiRegions::ExpList::m_session, m_trace, m_traceMap, Nektar::MultiRegions::NullExpListSharedPtr, Nektar::LocalRegions::Expansion0D::SetAdjacentElementExp(), and Nektar::MultiRegions::ExpList::SetUpPhysNormals().

Referenced by DisContField1D().

         {
             // Check for multiple calls
             if (m_trace != NullExpListSharedPtr)
             {
                 return;
             }
             
             SpatialDomains::MeshGraph1DSharedPtr graph1D = 
                 boost::dynamic_pointer_cast<SpatialDomains::MeshGraph1D>(
                     m_graph);
 
             m_globalBndMat = MemoryManager<GlobalLinSysMap>::AllocateSharedPtr();
 
             ExpList0DSharedPtr trace = MemoryManager<ExpList0D>::
                 AllocateSharedPtr(
                     m_bndCondExpansions,
                     m_bndConditions,
                     *m_exp,graph1D,
                     m_periodicVerts);
 
             m_trace = boost::dynamic_pointer_cast<ExpList>(trace);
 
             m_traceMap = MemoryManager<AssemblyMapDG>::
                 AllocateSharedPtr(m_session, graph1D, trace, *this,
                                   m_bndCondExpansions, m_bndConditions, 
                                   m_periodicVerts, variable);
 
             if (m_session->DefinesCmdLineArgument("verbose"))
             {
                 m_traceMap->PrintStats(std::cout, variable);
             }
 
             // Scatter trace points to 1D elements. For each element, we find
             // the trace point associated to each vertex. The element then
             // retains a pointer to the trace space points, to ensure
             // uniqueness of normals when retrieving from two adjoining
             // elements which do not lie in a plane.
             
             int ElmtPointGeom  = 0;
             int TracePointGeom = 0;
             LocalRegions::Expansion0DSharedPtr exp0d;
             LocalRegions::Expansion1DSharedPtr exp1d;
             for (int i = 0; i < m_exp->size(); ++i)
             {
                 exp1d = (*m_exp)[i]->as<LocalRegions::Expansion1D>();
                 for (int j = 0; j < exp1d->GetNverts(); ++j)
                 {
                     ElmtPointGeom  = (exp1d->GetGeom1D())->GetVid(j);
                     
                     for (int k = 0; k < m_trace->GetExpSize(); ++k)
                     {
                         TracePointGeom = m_trace->GetExp(k)->GetGeom()->GetVid(0);
                         
                         if (TracePointGeom == ElmtPointGeom)
                         {
                             exp0d = m_trace->GetExp(k)->as<LocalRegions::Expansion0D>();
                             exp0d->SetAdjacentElementExp(j,exp1d);
                             break;
                         }
                     }
                 }
             }
             
             SetUpPhysNormals();
 
             int cnt, n, e;
 
             // Identify boundary verts
             for(cnt = 0, n = 0; n < m_bndCondExpansions.num_elements(); ++n)
             {
                 if (m_bndConditions[n]->GetBoundaryConditionType() != 
                     SpatialDomains::ePeriodic)
                 {
                     for(e = 0; e < m_bndCondExpansions[n]->GetExpSize(); ++e)
                     {
                         m_boundaryVerts.insert(
                             m_traceMap->GetBndCondTraceToGlobalTraceMap(cnt+e));
                     }
                 }
                 else
                 {
                     ASSERTL0(false,"Periodic verts need setting up");
                 }
                 cnt += m_bndCondExpansions[n]->GetExpSize();
             }
 
             // Set up left-adjacent edge list.
             m_leftAdjacentVerts.resize(2*((*m_exp).size()));
             
             // count size of trace
             for (cnt = n = 0; n < m_exp->size(); ++n)
             {
                 for (int v = 0; v < (*m_exp)[n]->GetNverts(); ++v, ++cnt)
                 {
                     m_leftAdjacentVerts[cnt] = IsLeftAdjacentVertex(n, v);
                 }
             }
 
 
             boost::unordered_map<int,pair<int,int> > perVertToExpMap;
             boost::unordered_map<int,pair<int,int> >::iterator it2;
             for (n = 0; n < m_exp->size(); ++n)
             {
                 for (int v = 0; v < (*m_exp)[n]->GetNverts(); ++v)
                 {
                     PeriodicMap::iterator it = m_periodicVerts.find(
                                          (*m_exp)[n]->GetGeom()->GetVid(v));
 
                     if (it != m_periodicVerts.end())
                     {
                         perVertToExpMap[it->first] = make_pair(n,v);
                     }
                 }
             }
 
 
             // Set up mapping to copy Fwd of periodic bcs to Bwd of other edge.
             for (n = 0; n < m_exp->size(); ++n)
             {
                 for (int v = 0; v < (*m_exp)[n]->GetNverts(); ++v)
                 {
                     int vertGeomId = (*m_exp)[n]->GetGeom()->GetVid(v);
 
                     // Check to see if this face is periodic.
                     PeriodicMap::iterator it = m_periodicVerts.find(vertGeomId);
 
                     if (it != m_periodicVerts.end())
                     {
                         const PeriodicEntity &ent = it->second[0];
                         it2 = perVertToExpMap.find(ent.id);
 
                         if (it2 == perVertToExpMap.end())
                         {
                             if (m_session->GetComm()->GetRowComm()->GetSize() > 1 &&
                                 !ent.isLocal)
                             {
                                 continue;
                             }
                             else
                             {
                                 ASSERTL1(false, "Periodic vert not found!");
                             }
                         }
 
                         int offset  = m_trace->GetPhys_Offset((m_traceMap->GetElmtToTrace())
                                                               [n][v]->GetElmtId());
                         m_periodicFwdCopy.push_back(offset);
 
                         int offset2 = m_trace->GetPhys_Offset((m_traceMap->GetElmtToTrace())
                                                               [it2->second.first]
                                                               [it2->second.second]->GetElmtId());
                         m_periodicBwdCopy.push_back(offset2);
                     }
                 }
             }
         }

void Nektar::MultiRegions::DisContField1D::v_AddTraceIntegral	(	const Array< OneD, const NekDouble > &	Fn,
		Array< OneD, NekDouble > &	outarray
	)

protectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 1000 of file DisContField1D.cpp.

References Nektar::LibUtilities::BasisManager(), Nektar::LibUtilities::eGauss_Lagrange, Nektar::LibUtilities::eGaussGaussLegendre, Nektar::MultiRegions::ExpList::GetCoeff_Offset(), Nektar::MultiRegions::ExpList::GetExpSize(), GetNegatedFluxNormal(), Nektar::MultiRegions::ExpList::GetTrace(), Nektar::MultiRegions::ExpList::m_exp, m_traceMap, and CellMLToNektar.cellml_metadata::p.

         {
             int n,offset, t_offset;
 
             Array<OneD, Array<OneD, LocalRegions::ExpansionSharedPtr> >
                 &elmtToTrace = m_traceMap->GetElmtToTrace();
 
             vector<bool> negatedFluxNormal = GetNegatedFluxNormal();
             
             for (n = 0; n < GetExpSize(); ++n)
             {
                 // Number of coefficients on each element
                 int e_ncoeffs = (*m_exp)[n]->GetNcoeffs();
                 
                 offset = GetCoeff_Offset(n);
                 
                 // Implementation for every points except Gauss points
                 if ((*m_exp)[n]->GetBasis(0)->GetBasisType() !=
                      LibUtilities::eGauss_Lagrange)
                 {
                     t_offset = GetTrace()->GetCoeff_Offset(elmtToTrace[n][0]->GetElmtId());
                     if(negatedFluxNormal[2*n])
                     {
                         outarray[offset] -= Fn[t_offset];
                     }
                     else
                     {
                         outarray[offset] += Fn[t_offset];
                     }
                     
                     t_offset = GetTrace()->GetCoeff_Offset(elmtToTrace[n][1]->GetElmtId());
 
                     if(negatedFluxNormal[2*n+1])
                     {
                         outarray[offset+(*m_exp)[n]->GetVertexMap(1)] -= Fn[t_offset];
                     }
                     else
                     {
                         outarray[offset+(*m_exp)[n]->GetVertexMap(1)] += Fn[t_offset];
                     }
 
                 }
                 else
                 {
 #if 0           
                     DNekMatSharedPtr             m_Ixm;
                     LibUtilities::BasisSharedPtr BASE;
                     const LibUtilities::PointsKey
                             BS_p(e_ncoeffs,LibUtilities::eGaussGaussLegendre);
                     const LibUtilities::BasisKey
                             BS_k(LibUtilities::eGauss_Lagrange,e_ncoeffs,BS_p);
                     
                     BASE  = LibUtilities::BasisManager()[BS_k];
                     
                     Array<OneD, NekDouble> coords(3, 0.0);
                     
                     int j;
                     
                     for(p = 0; p < 2; ++p)
                     {
                         NekDouble vertnorm = 0.0;
                         for (int i=0; i<((*m_exp)[n]->
                              GetVertexNormal(p)).num_elements(); i++)
                         {
                             vertnorm += ((*m_exp)[n]->GetVertexNormal(p))[i][0];
                             coords[0] = vertnorm ;
                         }
                         
                         t_offset = GetTrace()->GetPhys_Offset(n+p);
                         
                         if (vertnorm >= 0.0)
                         {
                             m_Ixm = BASE->GetI(coords);
                             
                             
                             for (j = 0; j < e_ncoeffs; j++)
                             {
                                 outarray[offset + j]  +=
                                     (m_Ixm->GetPtr())[j] * Fn[t_offset];
                             }
                         }
                         
                         if (vertnorm < 0.0)
                         {
                             m_Ixm = BASE->GetI(coords);
                             
                             for (j = 0; j < e_ncoeffs; j++)
                             {
                                 outarray[offset + j] -=
                                     (m_Ixm->GetPtr())[j] * Fn[t_offset];
                             }
                         }
                     }
 #else
                     int j;
                     static DNekMatSharedPtr   m_Ixm, m_Ixp;
                     static int sav_ncoeffs = 0;
                     if(!m_Ixm.get() || e_ncoeffs != sav_ncoeffs)
                     {
                         LibUtilities::BasisSharedPtr BASE;
                         const LibUtilities::PointsKey
                             BS_p(e_ncoeffs,LibUtilities::eGaussGaussLegendre);
                         const LibUtilities::BasisKey
                             BS_k(LibUtilities::eGauss_Lagrange,e_ncoeffs,BS_p);
                         
                         BASE  = LibUtilities::BasisManager()[BS_k];
                         
                         Array<OneD, NekDouble> coords(1, 0.0);
                     
                         coords[0] = -1.0;
                         m_Ixm = BASE->GetI(coords); 
 
                         coords[0] = 1.0;
                         m_Ixp = BASE->GetI(coords); 
 
                         sav_ncoeffs = e_ncoeffs; 
                     }
                     
                     t_offset = GetTrace()->GetCoeff_Offset(elmtToTrace[n][0]->GetElmtId());
                     if(negatedFluxNormal[2*n])
                     {
                         for (j = 0; j < e_ncoeffs; j++)
                         {
                             outarray[offset + j]  -=
                                 (m_Ixm->GetPtr())[j] * Fn[t_offset];
                         }
                     }
                     else
                     {
                         for (j = 0; j < e_ncoeffs; j++)
                         {
                             outarray[offset + j]  +=
                                 (m_Ixm->GetPtr())[j] * Fn[t_offset];
                         }
                     }
                         
                     t_offset = GetTrace()->GetCoeff_Offset(elmtToTrace[n][1]->GetElmtId());
                     if (negatedFluxNormal[2*n+1])
                     {
                         for (j = 0; j < e_ncoeffs; j++)
                         {
                             outarray[offset + j] -=
                                 (m_Ixp->GetPtr())[j] * Fn[t_offset];
                         }
                     }
                     else
                     {
                         for (j = 0; j < e_ncoeffs; j++)
                         {
                             outarray[offset + j] +=
                                 (m_Ixp->GetPtr())[j] * Fn[t_offset];
                         }
                     }
 #endif
                 }
             }
         }

void Nektar::MultiRegions::DisContField1D::v_EvaluateBoundaryConditions	(	const NekDouble	time = `0.0`,
		const std::string	varName = `""`,
		const NekDouble	x2_in = `NekConstants::kNekUnsetDouble`,
		const NekDouble	x3_in = `NekConstants::kNekUnsetDouble`
	)

protectedvirtual

Evaluate all boundary conditions at a given time..

Based on the expression $g(x,t)$ for the boundary conditions, this function evaluates the boundary conditions for all boundaries at time-level t.

Parameters

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

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 1297 of file DisContField1D.cpp.

References ASSERTL0, Nektar::SpatialDomains::eDirichlet, Nektar::SpatialDomains::eNeumann, Nektar::SpatialDomains::eNotDefined, Nektar::SpatialDomains::eRobin, Nektar::MultiRegions::ExpList::GetCoeff(), Nektar::NekConstants::kNekUnsetDouble, m_bndCondExpansions, and m_bndConditions.

         {
             int i;
 
             Array<OneD, NekDouble> x0(1);
             Array<OneD, NekDouble> x1(1);
             Array<OneD, NekDouble> x2(1);
 
             for (i = 0; i < m_bndCondExpansions.num_elements(); ++i)
             {
                 if (time == 0.0 || m_bndConditions[i]->IsTimeDependent())
                 {
                     m_bndCondExpansions[i]->GetCoords(x0, x1, x2);
                     
                     if (x2_in != NekConstants::kNekUnsetDouble && x3_in !=
                         NekConstants::kNekUnsetDouble)
                     {
                         x1[0] = x2_in;
                         x2[0] = x3_in;
                     }
                     
                     if (m_bndConditions[i]->GetBoundaryConditionType() ==
                         SpatialDomains::eDirichlet)
                     {
                         m_bndCondExpansions[i]->SetCoeff(0,
                             (boost::static_pointer_cast<SpatialDomains
                              ::DirichletBoundaryCondition>(m_bndConditions[i])
                              ->m_dirichletCondition).Evaluate(x0[0],x1[0],x2[0],time));
                         m_bndCondExpansions[i]->SetPhys(0,m_bndCondExpansions[i]->GetCoeff(0));
                     }
                     else if (m_bndConditions[i]->GetBoundaryConditionType()
                             == SpatialDomains::eNeumann)
                     {
                         m_bndCondExpansions[i]->SetCoeff(0,
                             (boost::static_pointer_cast<SpatialDomains
                              ::NeumannBoundaryCondition>(m_bndConditions[i])
                              ->m_neumannCondition).Evaluate(x0[0],x1[0],x2[0],time));
                     }
                     else if (m_bndConditions[i]->GetBoundaryConditionType()
                             == SpatialDomains::eRobin)
                     {
                         m_bndCondExpansions[i]->SetCoeff(0,
                             (boost::static_pointer_cast<SpatialDomains
                              ::RobinBoundaryCondition>(m_bndConditions[i])
                              ->m_robinFunction).Evaluate(x0[0],x1[0],x2[0],time));
                         
                     }
                     else if (m_bndConditions[i]->GetBoundaryConditionType()
                              == SpatialDomains::eNotDefined)
                     {
                     }
                     else
                     {
                         ASSERTL0(false, "This type of BC not implemented yet");
                     }
                 }
             }
         }

void Nektar::MultiRegions::DisContField1D::v_ExtractTracePhys ( Array< OneD, NekDouble > & outarray )

protectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 955 of file DisContField1D.cpp.

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

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

void Nektar::MultiRegions::DisContField1D::v_ExtractTracePhys	(	const Array< OneD, const NekDouble > &	inarray,
		Array< OneD, NekDouble > &	outarray
	)

protectedvirtual

This method extracts the trace (verts in 1D) from the field inarray and puts the values in outarray.

It assumes the field is C0 continuous so that it can overwrite the edge data when visited by the two adjacent elements.

Parameters

inarray	An array containing the 1D data from which we wish to extract the edge data.
outarray	The resulting edge information.

This will not work for non-boundary expansions

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 975 of file DisContField1D.cpp.

References ASSERTL1, Nektar::MultiRegions::ExpList::GetExpSize(), Nektar::MultiRegions::ExpList::GetPhys_Offset(), m_trace, m_traceMap, and CellMLToNektar.cellml_metadata::p.

         {
             // Loop over elemente and collect forward expansion
             int nexp = GetExpSize();
             int n,p,offset,phys_offset;
             
             ASSERTL1(outarray.num_elements() >= m_trace->GetExpSize(),
                 "input array is of insufficient length");
             
             for (n  = 0; n < nexp; ++n)
             {
                 phys_offset = GetPhys_Offset(n);
         
                 for (p = 0; p < (*m_exp)[n]->GetNverts(); ++p)
                 {
                     offset = m_trace->GetPhys_Offset(
                                  (m_traceMap->GetElmtToTrace())[n][p]->GetElmtId());
                     (*m_exp)[n]->GetVertexPhysVals(p,  inarray + phys_offset,
                                                    outarray[offset]);
                 }
             }
         }        

virtual const Array<OneD,const MultiRegions::ExpListSharedPtr>& Nektar::MultiRegions::DisContField1D::v_GetBndCondExpansions ( void )

inlineprotectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 222 of file DisContField1D.h.

References m_bndCondExpansions.

             {
                 return m_bndCondExpansions;
             }

virtual const Array<OneD,const SpatialDomains::BoundaryConditionShPtr>& Nektar::MultiRegions::DisContField1D::v_GetBndConditions ( void )

inlineprotectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Reimplemented in Nektar::MultiRegions::ContField1D.

Definition at line 228 of file DisContField1D.h.

References m_bndConditions.

             {
                 return m_bndConditions;
             }

void Nektar::MultiRegions::DisContField1D::v_GetBndElmtExpansion	(	int	i,
		boost::shared_ptr< ExpList > &	result,
		const bool	DeclareCoeffPhysArrays
	)

protectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 1415 of file DisContField1D.cpp.

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

         {
             int n, cnt, nq;
             int offsetOld, offsetNew;
             std::vector<unsigned int> eIDs;
             
             Array<OneD, int> ElmtID,EdgeID;
             GetBoundaryToElmtMap(ElmtID,EdgeID);
             
             // Skip other boundary regions
             for (cnt = n = 0; n < i; ++n)
             {
                 cnt += m_bndCondExpansions[n]->GetExpSize();
             }
 
             // Populate eIDs with information from BoundaryToElmtMap
             for (n = 0; n < m_bndCondExpansions[i]->GetExpSize(); ++n)
             {
                 eIDs.push_back(ElmtID[cnt+n]);
             }
             
             // Create expansion list
             result = 
                 MemoryManager<ExpList1D>::AllocateSharedPtr
                     (*this, eIDs, DeclareCoeffPhysArrays);
             
             // Copy phys and coeffs to new explist
             if( DeclareCoeffPhysArrays)
             {
                 Array<OneD, NekDouble> tmp1, tmp2;
                 for (n = 0; n < result->GetExpSize(); ++n)
                 {
                     nq = GetExp(ElmtID[cnt+n])->GetTotPoints();
                     offsetOld = GetPhys_Offset(ElmtID[cnt+n]);
                     offsetNew = result->GetPhys_Offset(n);
                     Vmath::Vcopy(nq, tmp1 = GetPhys()+ offsetOld, 1,
                                 tmp2 = result->UpdatePhys()+ offsetNew, 1);
 
                     nq = GetExp(ElmtID[cnt+n])->GetNcoeffs();
                     offsetOld = GetCoeff_Offset(ElmtID[cnt+n]);
                     offsetNew = result->GetCoeff_Offset(n);
                     Vmath::Vcopy(nq, tmp1 = GetCoeffs()+ offsetOld, 1,
                                 tmp2 = result->UpdateCoeffs()+ offsetNew, 1);
                 }
             }
         }

void Nektar::MultiRegions::DisContField1D::v_GetBoundaryToElmtMap	(	Array< OneD, int > &	ElmtID,
		Array< OneD, int > &	VertID
	)

protectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 1362 of file DisContField1D.cpp.

References ASSERTL1, Nektar::MultiRegions::ExpList::GetExpSize(), m_bndCondExpansions, and m_bndConditions.

         {
             map<int, int> VertGID;
             int i,n,id;
             int bid,cnt,Vid;
             int nbcs = m_bndConditions.num_elements();
 
             // make sure arrays are of sufficient length
             if (ElmtID.num_elements() != nbcs)
             {
                 ElmtID = Array<OneD, int>(nbcs,-1);
             }
             else
             {
                 fill(ElmtID.get(), ElmtID.get()+nbcs, -1);
             }
 
             if (VertID.num_elements() != nbcs)
             {
                 VertID = Array<OneD, int>(nbcs);
             }
 
             // setup map of all global ids along boundary
             for (cnt = n = 0; n < m_bndCondExpansions.num_elements(); ++n)
             {
                 Vid =  m_bndCondExpansions[n]->GetExp(0)->GetGeom()->GetVertex(0)->GetVid();
                 VertGID[Vid] = cnt++;
             }
 
             // Loop over elements and find verts that match;
             LocalRegions::ExpansionSharedPtr exp;
             for(cnt = n = 0; n < GetExpSize(); ++n)
             {
                 exp = (*m_exp)[n];
                 for(i = 0; i < exp->GetNverts(); ++i)
                 {
                     id = exp->GetGeom()->GetVid(i);
 
                     if (VertGID.count(id) > 0)
                     {
                         bid = VertGID.find(id)->second;
                         ASSERTL1(ElmtID[bid] == -1,"Edge already set");
                         ElmtID[bid] = n;
                         VertID[bid] = i;
                         cnt ++;
                     }
                 }
             }
 
             ASSERTL1(cnt == nbcs,"Failed to visit all boundary condtiions");
         }

void Nektar::MultiRegions::DisContField1D::v_GetFwdBwdTracePhys	(	Array< OneD, NekDouble > &	Fwd,
		Array< OneD, NekDouble > &	Bwd
	)

protectedvirtual

Generate the forward or backward state for each trace point.

Parameters

Fwd	Forward state.
Bwd	Backward state.

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 825 of file DisContField1D.cpp.

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

         {
             v_GetFwdBwdTracePhys(m_phys,Fwd,Bwd);
         }

void Nektar::MultiRegions::DisContField1D::v_GetFwdBwdTracePhys	(	const Array< OneD, const NekDouble > &	field,
		Array< OneD, NekDouble > &	Fwd,
		Array< OneD, NekDouble > &	Bwd
	)

protectedvirtual

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

We first define the convention which defines "forwards" and "backwards". First an association is made between the vertex of each element and its corresponding vertex in the trace space using the mapping m_traceMap. The element can either be left-adjacent or right-adjacent to this trace edge (see Expansion0D::GetLeftAdjacentElementExp). Boundary edges are never left-adjacent since elemental left-adjacency is populated first.

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

Parameters

field	is a NekDouble array which contains the 1D data from which we wish to extract the backward and forward orientated trace/edge arrays.
Fwd	The resulting forwards space.
Bwd	The resulting backwards space.

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 858 of file DisContField1D.cpp.

References ASSERTL0, Nektar::SpatialDomains::eDirichlet, Nektar::SpatialDomains::eNeumann, Nektar::SpatialDomains::eNotDefined, Nektar::SpatialDomains::ePeriodic, Nektar::SpatialDomains::eRobin, Nektar::MultiRegions::ExpList::GetExpSize(), Nektar::MultiRegions::ExpList::GetPhys(), Nektar::MultiRegions::ExpList::GetPhys_Offset(), m_bndCondExpansions, m_bndConditions, m_leftAdjacentVerts, m_periodicBwdCopy, m_periodicFwdCopy, m_trace, m_traceMap, and Vmath::Zero().

         {
             // Counter variables
             int  n, v;
             
             // Number of elements
             int nElements = GetExpSize(); 
             
             // Initial index of each element
             int phys_offset;
             
             Array<OneD, Array<OneD, LocalRegions::ExpansionSharedPtr> >
                 &elmtToTrace = m_traceMap->GetElmtToTrace();
 
             // Set forward and backard state to zero
             Vmath::Zero(Fwd.num_elements(), Fwd, 1);
             Vmath::Zero(Bwd.num_elements(), Bwd, 1);
             
             int cnt;
 
             // Loop on the elements
             for (cnt = n = 0; n < nElements; ++n)
             {
                 // Set the offset of each element
                 phys_offset = GetPhys_Offset(n);
 
                 for(v = 0; v < 2; ++v, ++cnt)
                 {
                     int offset = m_trace->GetPhys_Offset(elmtToTrace[n][v]->GetElmtId());
                     
                     if (m_leftAdjacentVerts[cnt])
                     {
                         (*m_exp)[n]->GetVertexPhysVals(v, field + phys_offset,
                                                        Fwd[offset]);
                     }
                     else
                     {
                         (*m_exp)[n]->GetVertexPhysVals(v, field + phys_offset,
                                                        Bwd[offset]);
                     }
                 }
             }
             
             // Fill boundary conditions into missing elements.
             int id = 0;
             
             for(cnt = n = 0; n < m_bndCondExpansions.num_elements(); ++n)
             {   
                 if (m_bndConditions[n]->GetBoundaryConditionType() == 
                         SpatialDomains::eDirichlet)
                 {
                     id  = m_trace->GetPhys_Offset(m_traceMap->GetBndCondTraceToGlobalTraceMap(cnt));
                     Bwd[id] = m_bndCondExpansions[n]->GetPhys()[0]; //this is not getting the correct value?
                     cnt++;
                 }
                 else if (m_bndConditions[n]->GetBoundaryConditionType() == 
                          SpatialDomains::eNeumann || 
                          m_bndConditions[n]->GetBoundaryConditionType() == 
                          SpatialDomains::eRobin)
                 {
                     ASSERTL0((m_bndCondExpansions[n]->GetPhys())[0]==0.0,
                              "Method not set up for non-zero Neumann "
                              "boundary condition");
                     id  = m_trace->GetPhys_Offset(m_traceMap->GetBndCondTraceToGlobalTraceMap(cnt));
                     Bwd[id] = Fwd[id];
                     
                     cnt++;
                 }
                 else if (m_bndConditions[n]->GetBoundaryConditionType() ==
                          SpatialDomains::eNotDefined)
                 {
                     // Do nothing
                 }
                 else if (m_bndConditions[n]->GetBoundaryConditionType() !=
                          SpatialDomains::ePeriodic)
                 {
                     ASSERTL0(false,
                              "Method not set up for this boundary condition.");
                 }
             }
             
             // Copy any periodic boundary conditions.
             for (n = 0; n < m_periodicFwdCopy.size(); ++n)
             {
                 Bwd[m_periodicBwdCopy[n]] = Fwd[m_periodicFwdCopy[n]];
             }
 
             // Do parallel exchange for forwards/backwards spaces.
             m_traceMap->UniversalTraceAssemble(Fwd);
             m_traceMap->UniversalTraceAssemble(Bwd);
 
         }

map< int, RobinBCInfoSharedPtr > Nektar::MultiRegions::DisContField1D::v_GetRobinBCInfo ( void )

protectedvirtual

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

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

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

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 1492 of file DisContField1D.cpp.

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

         {
             int i;
             map<int, RobinBCInfoSharedPtr> returnval;
             Array<OneD, int> ElmtID,VertID;
             GetBoundaryToElmtMap(ElmtID,VertID);
 
             for (i = 0; i < m_bndCondExpansions.num_elements(); ++i)
             {
                 if (m_bndConditions[i]->GetBoundaryConditionType() ==
                     SpatialDomains::eRobin)
                 {
                     int elmtid;
 
                     Array<OneD, NekDouble> x0(1);
                     Array<OneD, NekDouble> x1(1);
                     Array<OneD, NekDouble> x2(1);
                     Array<OneD, NekDouble> coeffphys(1);
                     
                     m_bndCondExpansions[i]->GetCoords(x0, x1, x2);
 
                     coeffphys[0]  = (boost::static_pointer_cast<SpatialDomains
                          ::RobinBoundaryCondition>(m_bndConditions[i])
                          ->m_robinPrimitiveCoeff).Evaluate(x0[0],x1[0],x2[0],0.0);
                         
                     RobinBCInfoSharedPtr rInfo =
                         MemoryManager<RobinBCInfo>::
                             AllocateSharedPtr(VertID[i],coeffphys);
 
                     elmtid = ElmtID[i];
                     // make link list if necessary (not likely in
                     // 1D but needed in 2D & 3D)
                     if(returnval.count(elmtid) != 0)
                     {
                         rInfo->next = returnval.find(elmtid)->second;
                     }
                     returnval[elmtid] = rInfo;
                 }
             }
 
             return returnval;
         }

virtual ExpListSharedPtr& Nektar::MultiRegions::DisContField1D::v_GetTrace ( )

inlineprotectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 168 of file DisContField1D.h.

References m_trace.

             {
                 return m_trace;
             }

virtual AssemblyMapDGSharedPtr& Nektar::MultiRegions::DisContField1D::v_GetTraceMap ( void )

inlineprotectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 173 of file DisContField1D.h.

References m_traceMap.

             {
                 return m_traceMap;
             }

void Nektar::MultiRegions::DisContField1D::v_HelmSolve	(	const Array< OneD, const NekDouble > &	inarray,
		Array< OneD, NekDouble > &	outarray,
		const FlagList &	flags,
		const StdRegions::ConstFactorMap &	factors,
		const StdRegions::VarCoeffMap &	varcoeff,
		const Array< OneD, const NekDouble > &	dirForcing,
		const bool	PhysSpaceForcing
	)

protectedvirtual

Solve the Helmholtz equation.

Reimplemented from Nektar::MultiRegions::ExpList.

Reimplemented in Nektar::MultiRegions::ContField1D.

Definition at line 1161 of file DisContField1D.cpp.

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

         {
             int i,n,cnt,nbndry;
             int nexp = GetExpSize();
             Array<OneD,NekDouble> f(m_ncoeffs);
             DNekVec F(m_ncoeffs,f,eWrapper);
             Array<OneD,NekDouble> e_f, e_l;
 
             //----------------------------------
             // Setup RHS Inner product if required
             //----------------------------------
             if(PhysSpaceForcing)
             {
                 IProductWRTBase(inarray,f);
                 Vmath::Neg(m_ncoeffs,f,1);
             }
             else
             {
                 Vmath::Smul(m_ncoeffs,-1.0,inarray,1,f,1);
             }
 
             //----------------------------------
             // Solve continuous Boundary System
             //----------------------------------
             int GloBndDofs = m_traceMap->GetNumGlobalBndCoeffs();
             int NumDirBCs  = m_traceMap->GetNumLocalDirBndCoeffs();
             int e_ncoeffs,id;
 
             GlobalMatrixKey HDGLamToUKey(
                 StdRegions::eHybridDGLamToU,
                 NullAssemblyMapSharedPtr,
                 factors,
                 varcoeff);
 
             const DNekScalBlkMatSharedPtr &HDGLamToU =
                 GetBlockMatrix(HDGLamToUKey);
 
             // Retrieve global trace space storage, \Lambda, from trace expansion
             Array<OneD,NekDouble> BndSol =  Array<OneD,NekDouble>
                 (m_traceMap->GetNumLocalBndCoeffs());
             
             
             Array<OneD,NekDouble> BndRhs(GloBndDofs,0.0);
             // Zero trace space
             Vmath::Zero(GloBndDofs,BndSol,1);
 
             int     LocBndCoeffs = m_traceMap->GetNumLocalBndCoeffs();
             Array<OneD, NekDouble> loc_lambda(LocBndCoeffs);
             DNekVec LocLambda(LocBndCoeffs,loc_lambda,eWrapper);
 
             //----------------------------------
             // Evaluate Trace Forcing
             //----------------------------------
             // Determing <u_lam,f> terms using HDGLamToU matrix
             for (cnt = n = 0; n < nexp; ++n)
             {
                 nbndry = (*m_exp)[n]->NumDGBndryCoeffs();
 
                 e_ncoeffs = (*m_exp)[n]->GetNcoeffs();
                 e_f       = f+m_coeff_offset[n];
                 e_l       = loc_lambda + cnt;
 
                 // use outarray as tmp space
                 DNekVec     Floc    (nbndry, e_l, eWrapper);
                 DNekVec     ElmtFce (e_ncoeffs, e_f, eWrapper);
                 Floc = Transpose(*(HDGLamToU->GetBlock(n,n)))*ElmtFce;
 
                 cnt += nbndry;
             }
 
             // Assemble into global operator
             m_traceMap->AssembleBnd(loc_lambda,BndRhs);
 
             cnt = 0;
             // Copy Dirichlet boundary conditions into trace space
             for (i = 0; i < m_bndCondExpansions.num_elements(); ++i)
             {
                 if (m_bndConditions[i]->GetBoundaryConditionType() ==
                     SpatialDomains::eDirichlet)
                 {
                     id = m_traceMap->GetBndCondCoeffsToGlobalCoeffsMap(i);
                     BndSol[id] = m_bndCondExpansions[i]->GetCoeff(0);
                 }
                 else
                 {
                     id = m_traceMap->GetBndCondCoeffsToGlobalCoeffsMap(i);
                     BndRhs[id] += m_bndCondExpansions[i]->GetCoeff(0);
                 }
             }
 
             //----------------------------------
             // Solve trace problem
             //----------------------------------
             if (GloBndDofs - NumDirBCs > 0)
             {
                 GlobalLinSysKey       key(StdRegions::eHybridDGHelmBndLam,
                                           m_traceMap,factors);
                 GlobalLinSysSharedPtr LinSys = GetGlobalBndLinSys(key);
                 LinSys->Solve(BndRhs,BndSol,m_traceMap);
             }
 
             //----------------------------------
             // Internal element solves
             //----------------------------------
             GlobalMatrixKey invHDGhelmkey(StdRegions::eInvHybridDGHelmholtz,
                                             NullAssemblyMapSharedPtr,
                                             factors);
 
             const DNekScalBlkMatSharedPtr& InvHDGHelm =
                 GetBlockMatrix(invHDGhelmkey);
             DNekVec out(m_ncoeffs,outarray,eWrapper);
             Vmath::Zero(m_ncoeffs,outarray,1);
 
             // get local trace solution from BndSol
             m_traceMap->GlobalToLocalBnd(BndSol,loc_lambda);
 
             //  out =  u_f + u_lam = (*InvHDGHelm)*f + (LamtoU)*Lam
             out = (*InvHDGHelm)*F + (*HDGLamToU)*LocLambda;
         }

void Nektar::MultiRegions::DisContField1D::v_Reset ( )

protectedvirtual

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

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 1467 of file DisContField1D.cpp.

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

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

virtual MultiRegions::ExpListSharedPtr& Nektar::MultiRegions::DisContField1D::v_UpdateBndCondExpansion ( int i )

inlineprotectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 234 of file DisContField1D.h.

             {
                 return m_bndCondExpansions[i];
             }

virtual Array<OneD, SpatialDomains::BoundaryConditionShPtr>& Nektar::MultiRegions::DisContField1D::v_UpdateBndConditions ( )

inlineprotectedvirtual

Reimplemented from Nektar::MultiRegions::ExpList.

Definition at line 240 of file DisContField1D.h.

References m_bndConditions.

             {
                 return m_bndConditions;
             }

Member Data Documentation

Array<OneD,MultiRegions::ExpListSharedPtr> Nektar::MultiRegions::DisContField1D::m_bndCondExpansions

protected

Discretised boundary conditions.

It is an array of size equal to the number of boundary points and consists of entries of the type LocalRegions::PointExp. Every entry corresponds to a point on a single boundary region.

Definition at line 114 of file DisContField1D.h.

Referenced by Nektar::MultiRegions::ContField1D::ContField1D(), DisContField1D(), GenerateBoundaryConditionExpansion(), Nektar::MultiRegions::ContField1D::GetBndCondExpansions(), SetUpDG(), v_EvaluateBoundaryConditions(), v_GetBndCondExpansions(), v_GetBndElmtExpansion(), v_GetBoundaryToElmtMap(), v_GetFwdBwdTracePhys(), v_GetRobinBCInfo(), Nektar::MultiRegions::ContField1D::v_HelmSolve(), v_HelmSolve(), Nektar::MultiRegions::ContField1D::v_ImposeDirichletConditions(), and v_Reset().