#include <APE.h>

Inheritance diagram for Nektar::APE:

Collaboration diagram for Nektar::APE:

Public Member Functions
virtual	~APE ()
	Destructor. More...

Public Member Functions inherited from Nektar::SolverUtils::UnsteadySystem
virtual SOLVER_UTILS_EXPORT	~UnsteadySystem ()
	Destructor. More...

SOLVER_UTILS_EXPORT NekDouble	GetTimeStep (const Array< OneD, const Array< OneD, NekDouble > > &inarray)
	Calculate the larger time-step mantaining the problem stable. More...

Public Member Functions inherited from Nektar::SolverUtils::EquationSystem
virtual SOLVER_UTILS_EXPORT	~EquationSystem ()
	Destructor. More...

SOLVER_UTILS_EXPORT void	SetUpTraceNormals (void)

SOLVER_UTILS_EXPORT void	InitObject ()
	Initialises the members of this object. More...

SOLVER_UTILS_EXPORT void	DoInitialise ()
	Perform any initialisation necessary before solving the problem. More...

SOLVER_UTILS_EXPORT void	DoSolve ()
	Solve the problem. More...

SOLVER_UTILS_EXPORT void	TransCoeffToPhys ()
	Transform from coefficient to physical space. More...

SOLVER_UTILS_EXPORT void	TransPhysToCoeff ()
	Transform from physical to coefficient space. More...

SOLVER_UTILS_EXPORT void	Output ()
	Perform output operations after solve. More...

SOLVER_UTILS_EXPORT NekDouble	LinfError (unsigned int field, const Array< OneD, NekDouble > &exactsoln=NullNekDouble1DArray)
	Linf error computation. More...

SOLVER_UTILS_EXPORT std::string	GetSessionName ()
	Get Session name. More...

template<class T >
boost::shared_ptr< T >	as ()

SOLVER_UTILS_EXPORT void	ResetSessionName (std::string newname)
	Reset Session name. More...

SOLVER_UTILS_EXPORT LibUtilities::SessionReaderSharedPtr	GetSession ()
	Get Session name. More...

SOLVER_UTILS_EXPORT MultiRegions::ExpListSharedPtr	GetPressure ()
	Get pressure field if available. More...

SOLVER_UTILS_EXPORT void	PrintSummary (std::ostream &out)
	Print a summary of parameters and solver characteristics. More...

SOLVER_UTILS_EXPORT void	SetLambda (NekDouble lambda)
	Set parameter m_lambda. More...

SOLVER_UTILS_EXPORT void	EvaluateFunction (Array< OneD, Array< OneD, NekDouble > > &pArray, std::string pFunctionName, const NekDouble pTime=0.0, const int domain=0)
	Evaluates a function as specified in the session file. More...

SOLVER_UTILS_EXPORT void	EvaluateFunction (std::vector< std::string > pFieldNames, Array< OneD, Array< OneD, NekDouble > > &pFields, const std::string &pName, const NekDouble &pTime=0.0, const int domain=0)
	Populate given fields with the function from session. More...

SOLVER_UTILS_EXPORT void	EvaluateFunction (std::vector< std::string > pFieldNames, Array< OneD, MultiRegions::ExpListSharedPtr > &pFields, const std::string &pName, const NekDouble &pTime=0.0, const int domain=0)
	Populate given fields with the function from session. More...

SOLVER_UTILS_EXPORT void	EvaluateFunction (std::string pFieldName, Array< OneD, NekDouble > &pArray, const std::string &pFunctionName, const NekDouble &pTime=0.0, const int domain=0)

SOLVER_UTILS_EXPORT std::string	DescribeFunction (std::string pFieldName, const std::string &pFunctionName, const int domain)
	Provide a description of a function for a given field name. More...

SOLVER_UTILS_EXPORT void	InitialiseBaseFlow (Array< OneD, Array< OneD, NekDouble > > &base)
	Perform initialisation of the base flow. More...

SOLVER_UTILS_EXPORT void	SetInitialConditions (NekDouble initialtime=0.0, bool dumpInitialConditions=true, const int domain=0)
	Initialise the data in the dependent fields. More...

SOLVER_UTILS_EXPORT void	EvaluateExactSolution (int field, Array< OneD, NekDouble > &outfield, const NekDouble time)
	Evaluates an exact solution. More...

SOLVER_UTILS_EXPORT NekDouble	L2Error (unsigned int field, const Array< OneD, NekDouble > &exactsoln, bool Normalised=false)
	Compute the L2 error between fields and a given exact solution. More...

SOLVER_UTILS_EXPORT NekDouble	L2Error (unsigned int field, bool Normalised=false)
	Compute the L2 error of the fields. More...

SOLVER_UTILS_EXPORT Array < OneD, NekDouble >	ErrorExtraPoints (unsigned int field)
	Compute error (L2 and L_inf) over an larger set of quadrature points return [L2 Linf]. More...

SOLVER_UTILS_EXPORT void	WeakAdvectionGreensDivergenceForm (const Array< OneD, Array< OneD, NekDouble > > &F, Array< OneD, NekDouble > &outarray)
	Compute the inner product $(\nabla \phi \cdot F)$ . More...

SOLVER_UTILS_EXPORT void	WeakAdvectionDivergenceForm (const Array< OneD, Array< OneD, NekDouble > > &F, Array< OneD, NekDouble > &outarray)
	Compute the inner product $(\phi, \nabla \cdot F)$ . More...

SOLVER_UTILS_EXPORT void	WeakAdvectionNonConservativeForm (const Array< OneD, Array< OneD, NekDouble > > &V, const Array< OneD, const NekDouble > &u, Array< OneD, NekDouble > &outarray, bool UseContCoeffs=false)
	Compute the inner product $(\phi, V\cdot \nabla u)$ . More...

f SOLVER_UTILS_EXPORT void	AdvectionNonConservativeForm (const Array< OneD, Array< OneD, NekDouble > > &V, const Array< OneD, const NekDouble > &u, Array< OneD, NekDouble > &outarray, Array< OneD, NekDouble > &wk=NullNekDouble1DArray)
	Compute the non-conservative advection. More...

SOLVER_UTILS_EXPORT void	WeakDGAdvection (const Array< OneD, Array< OneD, NekDouble > > &InField, Array< OneD, Array< OneD, NekDouble > > &OutField, bool NumericalFluxIncludesNormal=true, bool InFieldIsInPhysSpace=false, int nvariables=0)
	Calculate the weak discontinuous Galerkin advection. More...

SOLVER_UTILS_EXPORT void	WeakDGDiffusion (const Array< OneD, Array< OneD, NekDouble > > &InField, Array< OneD, Array< OneD, NekDouble > > &OutField, bool NumericalFluxIncludesNormal=true, bool InFieldIsInPhysSpace=false)
	Calculate weak DG Diffusion in the LDG form. More...

SOLVER_UTILS_EXPORT void	Checkpoint_Output (const int n)
	Write checkpoint file of m_fields. More...

SOLVER_UTILS_EXPORT void	Checkpoint_Output (const int n, MultiRegions::ExpListSharedPtr &field, std::vector< Array< OneD, NekDouble > > &fieldcoeffs, std::vector< std::string > &variables)
	Write checkpoint file of custom data fields. More...

SOLVER_UTILS_EXPORT void	Checkpoint_BaseFlow (const int n)
	Write base flow file of m_fields. More...

SOLVER_UTILS_EXPORT void	WriteFld (const std::string &outname)
	Write field data to the given filename. More...

SOLVER_UTILS_EXPORT void	WriteFld (const std::string &outname, MultiRegions::ExpListSharedPtr &field, std::vector< Array< OneD, NekDouble > > &fieldcoeffs, std::vector< std::string > &variables)
	Write input fields to the given filename. More...

SOLVER_UTILS_EXPORT void	ImportFld (const std::string &infile, Array< OneD, MultiRegions::ExpListSharedPtr > &pFields)
	Input field data from the given file. More...

SOLVER_UTILS_EXPORT void	ImportFldToMultiDomains (const std::string &infile, Array< OneD, MultiRegions::ExpListSharedPtr > &pFields, const int ndomains)
	Input field data from the given file to multiple domains. More...

SOLVER_UTILS_EXPORT void	ImportFld (const std::string &infile, std::vector< std::string > &fieldStr, Array< OneD, Array< OneD, NekDouble > > &coeffs)
	Output a field. Input field data into array from the given file. More...

SOLVER_UTILS_EXPORT void	ImportFld (const std::string &infile, MultiRegions::ExpListSharedPtr &pField, std::string &pFieldName)
	Output a field. Input field data into ExpList from the given file. More...

SOLVER_UTILS_EXPORT void	ScanForHistoryPoints ()
	Builds map of which element holds each history point. More...

SOLVER_UTILS_EXPORT void	WriteHistoryData (std::ostream &out)
	Probe each history point and write to file. More...

SOLVER_UTILS_EXPORT void	SessionSummary (SummaryList &vSummary)
	Write out a session summary. More...

SOLVER_UTILS_EXPORT Array < OneD, MultiRegions::ExpListSharedPtr > &	UpdateFields ()

SOLVER_UTILS_EXPORT LibUtilities::FieldMetaDataMap &	UpdateFieldMetaDataMap ()
	Get hold of FieldInfoMap so it can be updated. More...

SOLVER_UTILS_EXPORT NekDouble	GetFinalTime ()
	Return final time. More...

SOLVER_UTILS_EXPORT int	GetNcoeffs ()

SOLVER_UTILS_EXPORT int	GetNcoeffs (const int eid)

SOLVER_UTILS_EXPORT int	GetNumExpModes ()

SOLVER_UTILS_EXPORT const Array< OneD, int >	GetNumExpModesPerExp ()

SOLVER_UTILS_EXPORT int	GetNvariables ()

SOLVER_UTILS_EXPORT const std::string	GetVariable (unsigned int i)

SOLVER_UTILS_EXPORT int	GetTraceTotPoints ()

SOLVER_UTILS_EXPORT int	GetTraceNpoints ()

SOLVER_UTILS_EXPORT int	GetExpSize ()

SOLVER_UTILS_EXPORT int	GetPhys_Offset (int n)

SOLVER_UTILS_EXPORT int	GetCoeff_Offset (int n)

SOLVER_UTILS_EXPORT int	GetTotPoints ()

SOLVER_UTILS_EXPORT int	GetTotPoints (int n)

SOLVER_UTILS_EXPORT int	GetNpoints ()

SOLVER_UTILS_EXPORT int	GetNumElmVelocity ()

SOLVER_UTILS_EXPORT int	GetSteps ()

SOLVER_UTILS_EXPORT NekDouble	GetTimeStep ()

SOLVER_UTILS_EXPORT void	CopyFromPhysField (const int i, Array< OneD, NekDouble > &output)

SOLVER_UTILS_EXPORT void	CopyToPhysField (const int i, Array< OneD, NekDouble > &output)

SOLVER_UTILS_EXPORT void	SetSteps (const int steps)

SOLVER_UTILS_EXPORT void	ZeroPhysFields ()

SOLVER_UTILS_EXPORT void	FwdTransFields ()

SOLVER_UTILS_EXPORT void	GetFluxVector (const int i, Array< OneD, Array< OneD, NekDouble > > &physfield, Array< OneD, Array< OneD, NekDouble > > &flux)

SOLVER_UTILS_EXPORT void	GetFluxVector (const int i, Array< OneD, Array< OneD, NekDouble > > &physfield, Array< OneD, Array< OneD, NekDouble > > &fluxX, Array< OneD, Array< OneD, NekDouble > > &fluxY)

SOLVER_UTILS_EXPORT void	GetFluxVector (const int i, const int j, Array< OneD, Array< OneD, NekDouble > > &physfield, Array< OneD, Array< OneD, NekDouble > > &flux)

SOLVER_UTILS_EXPORT void	NumericalFlux (Array< OneD, Array< OneD, NekDouble > > &physfield, Array< OneD, Array< OneD, NekDouble > > &numflux)

SOLVER_UTILS_EXPORT void	NumericalFlux (Array< OneD, Array< OneD, NekDouble > > &physfield, Array< OneD, Array< OneD, NekDouble > > &numfluxX, Array< OneD, Array< OneD, NekDouble > > &numfluxY)

SOLVER_UTILS_EXPORT void	NumFluxforScalar (const Array< OneD, Array< OneD, NekDouble > > &ufield, Array< OneD, Array< OneD, Array< OneD, NekDouble > > > &uflux)

SOLVER_UTILS_EXPORT void	NumFluxforVector (const Array< OneD, Array< OneD, NekDouble > > &ufield, Array< OneD, Array< OneD, Array< OneD, NekDouble > > > &qfield, Array< OneD, Array< OneD, NekDouble > > &qflux)

SOLVER_UTILS_EXPORT void	SetModifiedBasis (const bool modbasis)

SOLVER_UTILS_EXPORT int	NoCaseStringCompare (const string &s1, const string &s2)
	Perform a case-insensitive string comparison. More...

SOLVER_UTILS_EXPORT int	GetCheckpointNumber ()

SOLVER_UTILS_EXPORT void	SetCheckpointNumber (int num)

SOLVER_UTILS_EXPORT int	GetCheckpointSteps ()

SOLVER_UTILS_EXPORT void	SetCheckpointSteps (int num)

SOLVER_UTILS_EXPORT void	SetTime (const NekDouble time)

SOLVER_UTILS_EXPORT void	SetInitialStep (const int step)

SOLVER_UTILS_EXPORT void	SetBoundaryConditions (NekDouble time)
	Evaluates the boundary conditions at the given time. More...

virtual SOLVER_UTILS_EXPORT bool	v_NegatedOp ()
	Virtual function to identify if operator is negated in DoSolve. More...

Static Public Member Functions
static EquationSystemSharedPtr	create (const LibUtilities::SessionReaderSharedPtr &pSession)
	Creates an instance of this class. More...

Static Public Attributes
static std::string	className
	Name of class. More...

Protected Member Functions
	APE (const LibUtilities::SessionReaderSharedPtr &pSession)
	Initialises UnsteadySystem class members. More...

virtual void	v_InitObject ()
	Initialization object for the APE class. More...

void	DoOdeRhs (const Array< OneD, const Array< OneD, NekDouble > > &inarray, Array< OneD, Array< OneD, NekDouble > > &outarray, const NekDouble time)
	Compute the right-hand side. More...

void	DoOdeProjection (const Array< OneD, const Array< OneD, NekDouble > > &inarray, Array< OneD, Array< OneD, NekDouble > > &outarray, const NekDouble time)
	Compute the projection and call the method for imposing the boundary conditions in case of discontinuous projection. More...

void	GetFluxVector (const Array< OneD, Array< OneD, NekDouble > > &physfield, Array< OneD, Array< OneD, Array< OneD, NekDouble > > > &flux)
	Return the flux vector for the APE equations. More...

void	AddSource (Array< OneD, Array< OneD, NekDouble > > &outarray)
	sourceterm for p' equation obtained from GetSource More...

virtual void	v_ExtraFldOutput (std::vector< Array< OneD, NekDouble > > &fieldcoeffs, std::vector< std::string > &variables)

const Array< OneD, const Array < OneD, NekDouble > > &	GetNormals ()
	Get the normal vectors. More...

const Array< OneD, const Array < OneD, NekDouble > > &	GetVecLocs ()
	Get the locations of the components of the directed fields within the fields array. More...

const Array< OneD, const Array < OneD, NekDouble > > &	GetBasefield ()
	Get the baseflow field. More...

NekDouble	GetGamma ()
	Get the heat capacity ratio. More...

void	UpdateBasefield ()

void	UpdateSourceTerms ()

Protected Member Functions inherited from Nektar::SolverUtils::UnsteadySystem
SOLVER_UTILS_EXPORT	UnsteadySystem (const LibUtilities::SessionReaderSharedPtr &pSession)
	Initialises UnsteadySystem class members. More...

SOLVER_UTILS_EXPORT NekDouble	MaxTimeStepEstimator ()
	Get the maximum timestep estimator for cfl control. More...

virtual SOLVER_UTILS_EXPORT void	v_DoSolve ()
	Solves an unsteady problem. More...

virtual SOLVER_UTILS_EXPORT void	v_DoInitialise ()
	Sets up initial conditions. More...

virtual SOLVER_UTILS_EXPORT void	v_GenerateSummary (SummaryList &s)
	Print a summary of time stepping parameters. More...

virtual SOLVER_UTILS_EXPORT void	v_AppendOutput1D (Array< OneD, Array< OneD, NekDouble > > &solution1D)
	Print the solution at each solution point in a txt file. More...

virtual SOLVER_UTILS_EXPORT void	v_NumericalFlux (Array< OneD, Array< OneD, NekDouble > > &physfield, Array< OneD, Array< OneD, NekDouble > > &numflux)

virtual SOLVER_UTILS_EXPORT void	v_NumericalFlux (Array< OneD, Array< OneD, NekDouble > > &physfield, Array< OneD, Array< OneD, NekDouble > > &numfluxX, Array< OneD, Array< OneD, NekDouble > > &numfluxY)

virtual SOLVER_UTILS_EXPORT void	v_NumFluxforScalar (const Array< OneD, Array< OneD, NekDouble > > &ufield, Array< OneD, Array< OneD, Array< OneD, NekDouble > > > &uflux)

virtual SOLVER_UTILS_EXPORT void	v_NumFluxforVector (const Array< OneD, Array< OneD, NekDouble > > &ufield, Array< OneD, Array< OneD, Array< OneD, NekDouble > > > &qfield, Array< OneD, Array< OneD, NekDouble > > &qflux)

virtual SOLVER_UTILS_EXPORT NekDouble	v_GetTimeStep (const Array< OneD, const Array< OneD, NekDouble > > &inarray)
	Return the timestep to be used for the next step in the time-marching loop. More...

virtual SOLVER_UTILS_EXPORT bool	v_PreIntegrate (int step)

virtual SOLVER_UTILS_EXPORT bool	v_PostIntegrate (int step)

virtual SOLVER_UTILS_EXPORT bool	v_SteadyStateCheck (int step)

SOLVER_UTILS_EXPORT void	CheckForRestartTime (NekDouble &time)

SOLVER_UTILS_EXPORT void	SVVVarDiffCoeff (const Array< OneD, Array< OneD, NekDouble > > vel, StdRegions::VarCoeffMap &varCoeffMap)
	Evaluate the SVV diffusion coefficient according to Moura's paper where it should proportional to h time velocity. More...

Protected Member Functions inherited from Nektar::SolverUtils::EquationSystem
SOLVER_UTILS_EXPORT	EquationSystem (const LibUtilities::SessionReaderSharedPtr &pSession)
	Initialises EquationSystem class members. More...

int	nocase_cmp (const string &s1, const string &s2)

virtual SOLVER_UTILS_EXPORT NekDouble	v_LinfError (unsigned int field, const Array< OneD, NekDouble > &exactsoln=NullNekDouble1DArray)
	Virtual function for the L_inf error computation between fields and a given exact solution. More...

virtual SOLVER_UTILS_EXPORT NekDouble	v_L2Error (unsigned int field, const Array< OneD, NekDouble > &exactsoln=NullNekDouble1DArray, bool Normalised=false)
	Virtual function for the L_2 error computation between fields and a given exact solution. More...

virtual SOLVER_UTILS_EXPORT void	v_TransCoeffToPhys ()
	Virtual function for transformation to physical space. More...

virtual SOLVER_UTILS_EXPORT void	v_TransPhysToCoeff ()
	Virtual function for transformation to coefficient space. More...

virtual SOLVER_UTILS_EXPORT void	v_SetInitialConditions (NekDouble initialtime=0.0, bool dumpInitialConditions=true, const int domain=0)

virtual SOLVER_UTILS_EXPORT void	v_EvaluateExactSolution (unsigned int field, Array< OneD, NekDouble > &outfield, const NekDouble time)

SOLVER_UTILS_EXPORT void	SetUpBaseFields (SpatialDomains::MeshGraphSharedPtr &mesh)

SOLVER_UTILS_EXPORT void	ImportFldBase (std::string pInfile, SpatialDomains::MeshGraphSharedPtr pGraph)

virtual SOLVER_UTILS_EXPORT void	v_Output (void)

virtual SOLVER_UTILS_EXPORT MultiRegions::ExpListSharedPtr	v_GetPressure (void)

Protected Attributes
SolverUtils::AdvectionSharedPtr	m_advection

SolverUtils::RiemannSolverSharedPtr	m_riemannSolver

Array< OneD, Array< OneD, NekDouble > >	m_traceBasefield

Array< OneD, Array< OneD, NekDouble > >	m_vecLocs

NekDouble	m_gamma
	Isentropic coefficient, Ratio of specific heats (APE) More...

Array< OneD, Array< OneD, NekDouble > >	m_basefield

Array< OneD, NekDouble >	m_sourceTerms

std::vector< std::string >	m_basefield_names

Protected Attributes inherited from Nektar::SolverUtils::UnsteadySystem
int	m_infosteps
	Number of time steps between outputting status information. More...

LibUtilities::TimeIntegrationWrapperSharedPtr	m_intScheme
	Wrapper to the time integration scheme. More...

LibUtilities::TimeIntegrationSchemeOperators	m_ode
	The time integration scheme operators to use. More...

LibUtilities::TimeIntegrationSolutionSharedPtr	m_intSoln

NekDouble	m_epsilon

bool	m_explicitDiffusion
	Indicates if explicit or implicit treatment of diffusion is used. More...

bool	m_explicitAdvection
	Indicates if explicit or implicit treatment of advection is used. More...

bool	m_explicitReaction
	Indicates if explicit or implicit treatment of reaction is used. More...

bool	m_homoInitialFwd
	Flag to determine if simulation should start in homogeneous forward transformed state. More...

std::vector< int >	m_intVariables

std::vector< FilterSharedPtr >	m_filters

Protected Attributes inherited from Nektar::SolverUtils::EquationSystem
LibUtilities::CommSharedPtr	m_comm
	Communicator. More...

LibUtilities::SessionReaderSharedPtr	m_session
	The session reader. More...

LibUtilities::FieldIOSharedPtr	m_fld
	Field input/output. More...

map< std::string, Array< OneD, Array< OneD, float > > >	m_interpWeights
	Map of the interpolation weights for a specific filename. More...

map< std::string, Array< OneD, Array< OneD, unsigned int > > >	m_interpInds
	Map of the interpolation indices for a specific filename. More...

Array< OneD, MultiRegions::ExpListSharedPtr >	m_fields
	Array holding all dependent variables. More...

Array< OneD, MultiRegions::ExpListSharedPtr >	m_base
	Base fields. More...

Array< OneD, MultiRegions::ExpListSharedPtr >	m_derivedfields
	Array holding all dependent variables. More...

SpatialDomains::BoundaryConditionsSharedPtr	m_boundaryConditions
	Pointer to boundary conditions object. More...

SpatialDomains::MeshGraphSharedPtr	m_graph
	Pointer to graph defining mesh. More...

std::string	m_sessionName
	Name of the session. More...

NekDouble	m_time
	Current time of simulation. More...

int	m_initialStep
	Number of the step where the simulation should begin. More...

NekDouble	m_fintime
	Finish time of the simulation. More...

NekDouble	m_timestep
	Time step size. More...

NekDouble	m_lambda
	Lambda constant in real system if one required. More...

std::set< std::string >	m_loadedFields

NekDouble	m_checktime
	Time between checkpoints. More...

int	m_nchk
	Number of checkpoints written so far. More...

int	m_steps
	Number of steps to take. More...

int	m_checksteps
	Number of steps between checkpoints. More...

int	m_spacedim
	Spatial dimension (>= expansion dim). More...

int	m_expdim
	Expansion dimension. More...

bool	m_singleMode
	Flag to determine if single homogeneous mode is used. More...

bool	m_halfMode
	Flag to determine if half homogeneous mode is used. More...

bool	m_multipleModes
	Flag to determine if use multiple homogenenous modes are used. More...

bool	m_useFFT
	Flag to determine if FFT is used for homogeneous transform. More...

bool	m_homogen_dealiasing
	Flag to determine if dealiasing is used for homogeneous simulations. More...

bool	m_specHP_dealiasing
	Flag to determine if dealisising is usde for the Spectral/hp element discretisation. More...

enum MultiRegions::ProjectionType	m_projectionType
	Type of projection; e.g continuous or discontinuous. More...

Array< OneD, Array< OneD, NekDouble > >	m_traceNormals
	Array holding trace normals for DG simulations in the forwards direction. More...

Array< OneD, Array< OneD, Array< OneD, NekDouble > > >	m_gradtan
	1 x nvariable x nq More...

Array< OneD, Array< OneD, Array< OneD, NekDouble > > >	m_tanbasis
	2 x m_spacedim x nq More...

Array< OneD, bool >	m_checkIfSystemSingular
	Flag to indicate if the fields should be checked for singularity. More...

LibUtilities::FieldMetaDataMap	m_fieldMetaDataMap
	Map to identify relevant solver info to dump in output fields. More...

int	m_NumQuadPointsError
	Number of Quadrature points used to work out the error. More...

enum HomogeneousType	m_HomogeneousType

NekDouble	m_LhomX
	physical length in X direction (if homogeneous) More...

NekDouble	m_LhomY
	physical length in Y direction (if homogeneous) More...

NekDouble	m_LhomZ
	physical length in Z direction (if homogeneous) More...

int	m_npointsX
	number of points in X direction (if homogeneous) More...

int	m_npointsY
	number of points in Y direction (if homogeneous) More...

int	m_npointsZ
	number of points in Z direction (if homogeneous) More...

int	m_HomoDirec
	number of homogenous directions More...

int	m_NumMode
	Mode to use in case of single mode analysis. More...

Private Member Functions
void	SetBoundaryConditions (Array< OneD, Array< OneD, NekDouble > > &physarray, NekDouble time)
	Apply the Boundary Conditions to the APE equations. More...

void	WallBC (int bcRegion, int cnt, Array< OneD, Array< OneD, NekDouble > > &Fwd, Array< OneD, Array< OneD, NekDouble > > &physarray)
	Wall boundary conditions for the APE equations. More...

Friends
class	MemoryManager< APE >

Additional Inherited Members
Public Attributes inherited from Nektar::SolverUtils::UnsteadySystem
NekDouble	m_cflSafetyFactor
	CFL safety factor (comprise between 0 to 1). More...

Protected Types inherited from Nektar::SolverUtils::EquationSystem
enum	HomogeneousType { eHomogeneous1D, eHomogeneous2D, eHomogeneous3D, eNotHomogeneous }
	Parameter for homogeneous expansions. More...

Detailed Description

Definition at line 49 of file APE.h.

Constructor & Destructor Documentation

Nektar::APE::~APE ( )

virtual

Destructor.

Destructor for APE class.

Definition at line 142 of file APE.cpp.

 {
     
 }

Nektar::APE::APE ( const LibUtilities::SessionReaderSharedPtr & pSession )

protected

Initialises UnsteadySystem class members.

Definition at line 49 of file APE.cpp.

     : UnsteadySystem(pSession)
 {
 }

Member Function Documentation

void Nektar::APE::AddSource ( Array< OneD, Array< OneD, NekDouble > > & outarray )

protected

sourceterm for p' equation obtained from GetSource

Definition at line 377 of file APE.cpp.

References Nektar::SolverUtils::EquationSystem::GetTotPoints(), m_sourceTerms, UpdateSourceTerms(), and Vmath::Vadd().

Referenced by DoOdeRhs().

 {
     UpdateSourceTerms();
     Vmath::Vadd(GetTotPoints(), m_sourceTerms, 1, outarray[0], 1, outarray[0], 1);
 }

static EquationSystemSharedPtr Nektar::APE::create ( const LibUtilities::SessionReaderSharedPtr & pSession )

inlinestatic

Creates an instance of this class.

Definition at line 56 of file APE.h.

References Nektar::MemoryManager< DataType >::AllocateSharedPtr().

         {
             EquationSystemSharedPtr p = MemoryManager<APE>::AllocateSharedPtr(pSession);
             p->InitObject();
             return p;
         }

void Nektar::APE::DoOdeProjection	(	const Array< OneD, const Array< OneD, NekDouble > > &	inarray,
		Array< OneD, Array< OneD, NekDouble > > &	outarray,
		const NekDouble	time
	)

protected

Compute the projection and call the method for imposing the boundary conditions in case of discontinuous projection.

Definition at line 254 of file APE.cpp.

References Nektar::SolverUtils::EquationSystem::m_fields, SetBoundaryConditions(), and Vmath::Vcopy().

Referenced by v_InitObject().

 {
     int nvariables = inarray.num_elements();
     int nq = m_fields[0]->GetNpoints();
 
     // deep copy
     for (int i = 0; i < nvariables; ++i)
     {
         Vmath::Vcopy(nq, inarray[i], 1, outarray[i], 1);
     }
 
     SetBoundaryConditions(outarray, time);
 }

void Nektar::APE::DoOdeRhs	(	const Array< OneD, const Array< OneD, NekDouble > > &	inarray,
		Array< OneD, Array< OneD, NekDouble > > &	outarray,
		const NekDouble	time
	)

protected

Compute the right-hand side.

Definition at line 221 of file APE.cpp.

References AddSource(), Nektar::SolverUtils::EquationSystem::GetTotPoints(), m_advection, m_basefield, Nektar::SolverUtils::EquationSystem::m_fields, m_gamma, Nektar::SolverUtils::EquationSystem::m_spacedim, Vmath::Neg(), Vmath::Smul(), Vmath::Vdiv(), and Vmath::Vmul().

Referenced by v_InitObject().

 {
     int nVariables = inarray.num_elements();
     int nq = GetTotPoints();
     Array<OneD, NekDouble> tmp1(nq);
 
     // WeakDG does not use advVel, so we only provide a dummy array
     Array<OneD, Array<OneD, NekDouble> > advVel(m_spacedim);
     m_advection->Advect(nVariables, m_fields, advVel, inarray, outarray, time);
 
     for (int i = 0; i < nVariables; ++i)
     {
         if (i ==  0)
         {
             // c^2 = gamma*p0/rho0
             Vmath::Vdiv(nq, m_basefield[0], 1, m_basefield[1], 1, tmp1, 1);
             Vmath::Smul(nq, m_gamma, tmp1, 1, tmp1, 1);
             Vmath::Vmul(nq, tmp1, 1, outarray[i], 1, outarray[i], 1);
         }
 
         Vmath::Neg(nq, outarray[i], 1);
     }
 
     AddSource(outarray);
 }

const Array< OneD, const Array< OneD, NekDouble > > & Nektar::APE::GetBasefield ( )

protected

Get the baseflow field.

Definition at line 424 of file APE.cpp.

References m_basefield, Nektar::SolverUtils::EquationSystem::m_fields, Nektar::SolverUtils::EquationSystem::m_spacedim, and m_traceBasefield.

Referenced by v_InitObject().

 {
     for (int i = 0; i < m_spacedim + 2; i++)
     {
         m_fields[0]->ExtractTracePhys(m_basefield[i], m_traceBasefield[i]);
     }
     return m_traceBasefield;
 }

void Nektar::APE::GetFluxVector	(	const Array< OneD, Array< OneD, NekDouble > > &	physfield,
		Array< OneD, Array< OneD, Array< OneD, NekDouble > > > &	flux
	)

protected

Return the flux vector for the APE equations.

Parameters

physfield	Fields.
flux	Resulting flux. flux[eq][dir][pt]

Definition at line 154 of file APE.cpp.

References ASSERTL1, m_basefield, m_gamma, Nektar::SolverUtils::EquationSystem::m_spacedim, Vmath::Smul(), UpdateBasefield(), Vmath::Vadd(), Vmath::Vdiv(), Vmath::Vmul(), Vmath::Vvtvp(), and Vmath::Zero().

Referenced by v_InitObject().

 {
     UpdateBasefield();
 
     int nq = physfield[0].num_elements();
     Array<OneD, NekDouble> tmp1(nq);
     Array<OneD, NekDouble> tmp2(nq);
 
     ASSERTL1(flux[0].num_elements() == m_spacedim,
                  "Dimension of flux array and velocity array do not match");
 
     // F_{adv,p',j} = \rho_0 u'_j + p' \bar{u}_j / c^2
     for (int j = 0; j < m_spacedim; ++j)
     {
         Vmath::Zero(nq, flux[0][j], 1);
 
         // construct rho_0 u'_j term
         Vmath::Vmul(nq, m_basefield[1], 1, physfield[j + 1], 1, flux[0][j], 1);
 
         // construct p' \bar{u}_j / c^2 term
         // c^2
         Vmath::Vdiv(nq, m_basefield[0], 1, m_basefield[1], 1, tmp1, 1);
         Vmath::Smul(nq, m_gamma, tmp1, 1, tmp1, 1);
 
         // p' \bar{u}_j / c^2 term
         Vmath::Vmul(nq, physfield[0], 1, m_basefield[j + 2], 1, tmp2, 1);
         Vmath::Vdiv(nq, tmp2, 1, tmp1, 1, tmp2, 1);
 
         // \rho_0 u'_j + p' \bar{u}_j / c^2
         Vmath::Vadd(nq, flux[0][j], 1, tmp2, 1, flux[0][j], 1);
     }
 
     for (int i = 1; i < flux.num_elements(); ++i)
     {
         ASSERTL1(flux[i].num_elements() == m_spacedim,
                  "Dimension of flux array and velocity array do not match");
 
         // F_{adv,u'_i,j} = (p'/ \bar{rho} + \bar{u}_k u'_k) \delta_{ij}
         for (int j = 0; j < m_spacedim; ++j)
         {
             Vmath::Zero(nq, flux[i][j], 1);
 
             if (i - 1 == j)
             {
                 // contruct p'/ \bar{rho} term
                 Vmath::Vdiv(nq, physfield[0], 1, m_basefield[1], 1, flux[i][j], 1);
 
                 // construct \bar{u}_k u'_k term
                 Vmath::Zero(nq, tmp1, 1);
                 for (int k = 0; k < m_spacedim; ++k)
                 {
                     Vmath::Vvtvp(nq, physfield[k + 1], 1, m_basefield[k + 2], 1, tmp1, 1, tmp1, 1);
                 }
 
                 // add terms
                 Vmath::Vadd(nq, flux[i][j], 1, tmp1, 1, flux[i][j], 1);
             }
         }
     }
 }

NekDouble Nektar::APE::GetGamma ( )

protected

Get the heat capacity ratio.

Definition at line 437 of file APE.cpp.

References m_gamma.

Referenced by v_InitObject().

 {
     return m_gamma;
 }

const Array< OneD, const Array< OneD, NekDouble > > & Nektar::APE::GetNormals ( )

protected

Get the normal vectors.

Definition at line 406 of file APE.cpp.

References Nektar::SolverUtils::EquationSystem::m_traceNormals.

Referenced by v_InitObject().

 {
     return m_traceNormals;
 }

const Array< OneD, const Array< OneD, NekDouble > > & Nektar::APE::GetVecLocs ( )

protected

Get the locations of the components of the directed fields within the fields array.

Definition at line 415 of file APE.cpp.

References m_vecLocs.

Referenced by v_InitObject().

 {
     return m_vecLocs;
 }

void Nektar::APE::SetBoundaryConditions	(	Array< OneD, Array< OneD, NekDouble > > &	physarray,
		NekDouble	time
	)

private

Apply the Boundary Conditions to the APE equations.

Definition at line 274 of file APE.cpp.

References Nektar::SolverUtils::EquationSystem::GetTraceTotPoints(), Nektar::SolverUtils::EquationSystem::m_fields, Nektar::SolverUtils::EquationSystem::m_session, and WallBC().

Referenced by DoOdeProjection().

 {
     std::string varName;
     int nvariables = m_fields.num_elements();
     int cnt        = 0;
     int nTracePts  = GetTraceTotPoints();
 
     // Extract trace for boundaries. Needs to be done on all processors to avoid
     // deadlock.
     Array<OneD, Array<OneD, NekDouble> > Fwd(nvariables);
     for (int i = 0; i < nvariables; ++i)
     {
         Fwd[i] = Array<OneD, NekDouble>(nTracePts);
         m_fields[i]->ExtractTracePhys(inarray[i], Fwd[i]);
     }
 
     // loop over Boundary Regions
     for(int n = 0; n < m_fields[0]->GetBndConditions().num_elements(); ++n)
     {
         // Wall Boundary Condition
         if (boost::iequals(m_fields[0]->GetBndConditions()[n]->GetUserDefined(),"Wall"))
         {
             WallBC(n, cnt, Fwd, inarray);
         }
 
         // Time Dependent Boundary Condition (specified in meshfile)
         if (m_fields[0]->GetBndConditions()[n]->IsTimeDependent())
         {
             for (int i = 0; i < nvariables; ++i)
             {
                 varName = m_session->GetVariable(i);
                 m_fields[i]->EvaluateBoundaryConditions(time, varName);
             }
         }
         cnt +=m_fields[0]->GetBndCondExpansions()[n]->GetExpSize();
     }
 }

void Nektar::APE::UpdateBasefield ( )

protected

Definition at line 443 of file APE.cpp.

References Nektar::SolverUtils::EquationSystem::EvaluateFunction(), m_basefield, m_basefield_names, and Nektar::SolverUtils::EquationSystem::m_time.

Referenced by GetFluxVector(), and v_ExtraFldOutput().

 {
     static NekDouble last_update = -1.0;
 
     if (m_time > last_update)
     {
         last_update = m_time;
         EvaluateFunction(m_basefield_names, m_basefield, "Baseflow", m_time);
     }
 }

void Nektar::APE::UpdateSourceTerms ( )

protected

Definition at line 454 of file APE.cpp.

References Nektar::SolverUtils::EquationSystem::EvaluateFunction(), Nektar::SolverUtils::EquationSystem::GetNcoeffs(), Nektar::SolverUtils::EquationSystem::m_fields, m_sourceTerms, and Nektar::SolverUtils::EquationSystem::m_time.

Referenced by AddSource().

 {
     static NekDouble last_update = -1.0;
 
     if (m_time > last_update)
     {
         Array<OneD, NekDouble> sourceC(m_fields[0]->GetNcoeffs());
 
         EvaluateFunction("S", m_sourceTerms, "Source", m_time);
 
         m_fields[0]->IProductWRTBase(m_sourceTerms, sourceC);
         m_fields[0]->MultiplyByElmtInvMass(sourceC, sourceC);
         m_fields[0]->BwdTrans(sourceC, m_sourceTerms);
 
         last_update = m_time;
     }
 }

void Nektar::APE::v_ExtraFldOutput	(	std::vector< Array< OneD, NekDouble > > &	fieldcoeffs,
		std::vector< std::string > &	variables
	)

protectedvirtual

Reimplemented from Nektar::SolverUtils::EquationSystem.

Definition at line 384 of file APE.cpp.

References m_basefield, m_basefield_names, Nektar::SolverUtils::EquationSystem::m_fields, Nektar::SolverUtils::EquationSystem::m_spacedim, and UpdateBasefield().

 {
     UpdateBasefield();
 
     const int nCoeffs = m_fields[0]->GetNcoeffs();
 
     for (int i = 0; i < m_spacedim + 2; i++)
     {
         variables.push_back(m_basefield_names[i]);
 
         Array<OneD, NekDouble> tmpFwd(nCoeffs);
         m_fields[0]->FwdTrans(m_basefield[i], tmpFwd);
         fieldcoeffs.push_back(tmpFwd);
     }
 }

void Nektar::APE::v_InitObject ( )

protectedvirtual

Initialization object for the APE class.

Reimplemented from Nektar::SolverUtils::UnsteadySystem.

Definition at line 59 of file APE.cpp.

 {
     UnsteadySystem::v_InitObject();
 
     // TODO: We have a bug somewhere in the 1D boundary conditions. Therefore 1D
     // problems are currently disabled. This should get fixed in the future.
     ASSERTL0(m_spacedim > 1, "1D problems currently not supported by the APE class.");
 
     ASSERTL0(m_projectionType == MultiRegions::eDiscontinuous,
              "Only Projection=DisContinuous supported by the APE class.");
 
     // Load isentropic coefficient, Ratio of specific heats
     m_session->LoadParameter("Gamma", m_gamma, 1.4);
 
     // Define Baseflow fields
     m_basefield = Array<OneD, Array<OneD, NekDouble> >(m_spacedim + 2);
     m_basefield_names.push_back("p0");
     m_basefield_names.push_back("rho0");
     m_basefield_names.push_back("u0");
     m_basefield_names.push_back("v0");
     m_basefield_names.push_back("w0");
 
     // Resize the advection velocities vector to dimension of the problem
     m_basefield_names.resize(m_spacedim + 2);
 
     //  Initialize the sourceterm
     m_sourceTerms = Array<OneD, NekDouble>(GetTotPoints());
 
     // Do not forwards transform initial condition
     m_homoInitialFwd = false;
 
     // Define the normal velocity fields
     if (m_fields[0]->GetTrace())
     {
         m_traceBasefield = Array<OneD, Array<OneD, NekDouble> > (m_spacedim + 2);
         for (int i = 0; i < m_spacedim + 2; i++)
         {
             m_traceBasefield[i] = Array<OneD, NekDouble>(GetTraceNpoints());
         }
     }
 
     // Set up locations of velocity and base velocity vectors.
     m_vecLocs = Array<OneD, Array<OneD, NekDouble> >(1);
     m_vecLocs[0] = Array<OneD, NekDouble>(m_spacedim);
     for (int i = 0; i < m_spacedim; ++i)
     {
         // u', v', w'
         m_vecLocs[0][i] = 1 + i;
     }
 
     string riemName;
     m_session->LoadSolverInfo("UpwindType", riemName, "APEUpwind");
     m_riemannSolver = SolverUtils::GetRiemannSolverFactory().CreateInstance(
                           riemName);
     m_riemannSolver->SetVector("N",         &APE::GetNormals,   this);
     m_riemannSolver->SetVector("basefield", &APE::GetBasefield, this);
     m_riemannSolver->SetAuxVec("vecLocs",   &APE::GetVecLocs,   this);
     m_riemannSolver->SetParam("Gamma",     &APE::GetGamma,     this);
 
     // Set up advection operator
     string advName;
     m_session->LoadSolverInfo("AdvectionType", advName, "WeakDG");
     m_advection = SolverUtils::GetAdvectionFactory()
                   .CreateInstance(advName, advName);
     m_advection->SetFluxVector(&APE::GetFluxVector, this);
     m_advection->SetRiemannSolver(m_riemannSolver);
     m_advection->InitObject(m_session, m_fields);
 
     if (m_explicitAdvection)
     {
         m_ode.DefineOdeRhs(&APE::DoOdeRhs,        this);
         m_ode.DefineProjection(&APE::DoOdeProjection, this);
     }
     else
     {
         ASSERTL0(false, "Implicit APE not set up.");
     }
 }

void Nektar::APE::WallBC	(	int	bcRegion,
		int	cnt,
		Array< OneD, Array< OneD, NekDouble > > &	Fwd,
		Array< OneD, Array< OneD, NekDouble > > &	physarray
	)

private

Wall boundary conditions for the APE equations.

Definition at line 317 of file APE.cpp.

References Nektar::SolverUtils::EquationSystem::m_fields, Nektar::SolverUtils::EquationSystem::m_spacedim, Nektar::SolverUtils::EquationSystem::m_traceNormals, Vmath::Smul(), Vmath::Vcopy(), and Vmath::Vvtvp().

Referenced by SetBoundaryConditions().

 {
     int nVariables = physarray.num_elements();
 
     const Array<OneD, const int> &traceBndMap = m_fields[0]->GetTraceBndMap();
 
     // Adjust the physical values of the trace to take
     // user defined boundaries into account
     int id1, id2, nBCEdgePts;
     int eMax = m_fields[0]->GetBndCondExpansions()[bcRegion]->GetExpSize();
 
     for (int e = 0; e < eMax; ++e)
     {
         nBCEdgePts = m_fields[0]->GetBndCondExpansions()[bcRegion]->
                 GetExp(e)->GetTotPoints();
         id1 = m_fields[0]->GetBndCondExpansions()[bcRegion]->GetPhys_Offset(e);
         id2 = m_fields[0]->GetTrace()->GetPhys_Offset(traceBndMap[cnt+e]);
 
         // For 2D/3D, define: v* = v - 2(v.n)n
         Array<OneD, NekDouble> tmp(nBCEdgePts, 0.0);
 
         // Calculate (v.n)
         for (int i = 0; i < m_spacedim; ++i)
         {
             Vmath::Vvtvp(nBCEdgePts,
                          &Fwd[1+i][id2], 1,
                          &m_traceNormals[i][id2], 1,
                          &tmp[0], 1,
                          &tmp[0], 1);
         }
 
         // Calculate 2.0(v.n)
         Vmath::Smul(nBCEdgePts, -2.0, &tmp[0], 1, &tmp[0], 1);
 
         // Calculate v* = v - 2.0(v.n)n
         for (int i = 0; i < m_spacedim; ++i)
         {
             Vmath::Vvtvp(nBCEdgePts,
                          &tmp[0], 1,
                          &m_traceNormals[i][id2], 1,
                          &Fwd[1+i][id2], 1,
                          &Fwd[1+i][id2], 1);
         }
 
         // Copy boundary adjusted values into the boundary expansion
         for (int i = 0; i < nVariables; ++i)
         {
             Vmath::Vcopy(nBCEdgePts,
                          &Fwd[i][id2], 1,
                          &(m_fields[i]->GetBndCondExpansions()[bcRegion]->UpdatePhys())[id1], 1);
         }
     }
 }

Friends And Related Function Documentation

friend class MemoryManager< APE >

friend

Definition at line 53 of file APE.h.

Member Data Documentation

string Nektar::APE::className

static

Initial value:

= GetEquationSystemFactory().RegisterCreatorFunction(
            "APE", APE::create,
            "APE1/APE4 (Acoustic Perturbation Equations)")

Name of class.

Definition at line 64 of file APE.h.

SolverUtils::AdvectionSharedPtr Nektar::APE::m_advection

protected

Definition at line 72 of file APE.h.

Referenced by DoOdeRhs(), and v_InitObject().

Array<OneD, Array<OneD, NekDouble> > Nektar::APE::m_basefield

protected

Definition at line 78 of file APE.h.

Referenced by DoOdeRhs(), GetBasefield(), GetFluxVector(), UpdateBasefield(), v_ExtraFldOutput(), and v_InitObject().

std::vector<std::string> Nektar::APE::m_basefield_names

protected

Definition at line 80 of file APE.h.

Referenced by UpdateBasefield(), v_ExtraFldOutput(), and v_InitObject().

NekDouble Nektar::APE::m_gamma

protected

Isentropic coefficient, Ratio of specific heats (APE)

Definition at line 77 of file APE.h.

Referenced by DoOdeRhs(), GetFluxVector(), GetGamma(), and v_InitObject().

SolverUtils::RiemannSolverSharedPtr Nektar::APE::m_riemannSolver

protected

Definition at line 73 of file APE.h.

Referenced by v_InitObject().

Array<OneD, NekDouble> Nektar::APE::m_sourceTerms

protected

Definition at line 79 of file APE.h.

Referenced by AddSource(), UpdateSourceTerms(), and v_InitObject().

Array<OneD, Array<OneD, NekDouble> > Nektar::APE::m_traceBasefield

protected

Definition at line 74 of file APE.h.

Referenced by GetBasefield(), and v_InitObject().

Array<OneD, Array<OneD, NekDouble> > Nektar::APE::m_vecLocs

protected

Definition at line 75 of file APE.h.

Referenced by GetVecLocs(), and v_InitObject().

Public Member Functions

Static Public Member Functions

Static Public Attributes

Protected Member Functions

Protected Attributes

Private Member Functions

Friends

Additional Inherited Members

Detailed Description

Constructor & Destructor Documentation

Member Function Documentation

Friends And Related Function Documentation

Member Data Documentation