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Nektar::IterativeElasticSystem Class Reference

Class for iterative elastic system, in which linear elasticity is applied in substeps to attain a large deformation. More...

#include <IterativeElasticSystem.h>

Inheritance diagram for Nektar::IterativeElasticSystem:
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Collaboration diagram for Nektar::IterativeElasticSystem:
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Static Public Member Functions

static EquationSystemSharedPtr create (const LibUtilities::SessionReaderSharedPtr &pSession)
 Creates an instance of this class. More...
 
- Static Public Member Functions inherited from Nektar::LinearElasticSystem
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...
 
- Static Public Attributes inherited from Nektar::LinearElasticSystem
static std::string className
 Name of class. More...
 

Protected Member Functions

 IterativeElasticSystem (const LibUtilities::SessionReaderSharedPtr &pSession)
 
virtual void v_InitObject ()
 Set up the linear elasticity system. More...
 
virtual void v_GenerateSummary (SolverUtils::SummaryList &s)
 Generate summary at runtime. More...
 
virtual void v_DoSolve ()
 Solve elliptic linear elastic system. More...
 
void WriteGeometry (const int i)
 Write out a file in serial or directory in parallel containing new mesh geometry. More...
 
- Protected Member Functions inherited from Nektar::LinearElasticSystem
 LinearElasticSystem (const LibUtilities::SessionReaderSharedPtr &pSession)
 Default constructor. More...
 
virtual void v_ExtraFldOutput (std::vector< Array< OneD, NekDouble > > &fieldcoeffs, std::vector< std::string > &variables)
 
- 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 std::string &s1, const std::string &s2)
 
virtual SOLVER_UTILS_EXPORT void v_DoInitialise ()
 Virtual function for initialisation implementation. More...
 
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 EvaluateFunctionExp (std::string pFieldName, Array< OneD, NekDouble > &pArray, const std::string &pFunctionName, const NekDouble &pTime=0.0, const int domain=0)
 
SOLVER_UTILS_EXPORT void EvaluateFunctionFld (std::string pFieldName, Array< OneD, NekDouble > &pArray, const std::string &pFunctionName, const NekDouble &pTime=0.0, const int domain=0)
 
SOLVER_UTILS_EXPORT void EvaluateFunctionPts (std::string pFieldName, Array< OneD, NekDouble > &pArray, const std::string &pFunctionName, const NekDouble &pTime=0.0, const int domain=0)
 
SOLVER_UTILS_EXPORT void LoadPts (std::string funcFilename, std::string filename, Nektar::LibUtilities::PtsFieldSharedPtr &outPts)
 
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

int m_numSteps
 Number of steps to split deformation across. More...
 
bool m_repeatBCs
 Flag determining whether to repeat boundary conditions. More...
 
Array< OneD, Array< OneD,
Array< OneD, NekDouble > > > 
m_savedBCs
 Storage for boundary conditions. More...
 
std::vector< int > m_toDeform
 Vector of boundary regions to deform. More...
 
- Protected Attributes inherited from Nektar::LinearElasticSystem
NekDouble m_nu
 Poisson ratio. More...
 
NekDouble m_E
 Young's modulus. More...
 
NekDouble m_beta
 Parameter dictating amount of thermal stress to add. More...
 
CoupledAssemblyMapSharedPtr m_assemblyMap
 Assembly map for the coupled (u,v,w) system. More...
 
DNekScalBlkMatSharedPtr m_schurCompl
 Schur complement boundary-boundary matrix. More...
 
DNekScalBlkMatSharedPtr m_BinvD
 Matrix of elemental $ B^{-1}D $ components. More...
 
DNekScalBlkMatSharedPtr m_C
 Matrix of elemental $ C $ components. More...
 
DNekScalBlkMatSharedPtr m_Dinv
 Matrix of elemental $ D^{-1} $ components. More...
 
Array< OneD, Array< OneD,
unsigned int > > 
m_bmap
 Boundary maps for each of the fields. More...
 
Array< OneD, Array< OneD,
unsigned int > > 
m_imap
 Interior maps for each of the fields. More...
 
Array< OneD, Array< OneD,
NekDouble > > 
m_temperature
 Storage for the temperature terms. More...
 
Array< OneD, Array< OneD,
Array< OneD, NekDouble > > > 
m_stress
 Storage for the thermal stress terms. More...
 
- 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...
 
std::map< std::string,
FieldUtils::Interpolator
m_interpolators
 Map of interpolator objects. More...
 
std::map< std::string,
std::pair< std::string,
LibUtilities::PtsFieldSharedPtr > > 
m_loadedPtsFields
 pts fields we already read from disk: {funcFilename: (filename, ptsfield)} More...
 
std::map< std::string,
std::pair< std::string,
loadedFldField > > 
m_loadedFldFields
 
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...
 
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...
 

Friends

class MemoryManager< IterativeElasticSystem >
 Class may only be instantiated through the MemoryManager. More...
 

Additional Inherited Members

- Public Member Functions inherited from Nektar::LinearElasticSystem
void BuildMatrixSystem ()
 Build matrix system for linear elasticity equations. More...
 
void SetStaticCondBlock (const int n, const LocalRegions::ExpansionSharedPtr exp, Array< TwoD, DNekMatSharedPtr > &mat)
 Given a block matrix for an element, construct its static condensation matrices. More...
 
DNekMatSharedPtr BuildLaplacianIJMatrix (const int k1, const int k2, const NekDouble scale, LocalRegions::ExpansionSharedPtr exp)
 Construct a LaplacianIJ matrix for a given expansion. 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 std::string &s1, const std::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...
 
- Protected Types inherited from Nektar::SolverUtils::EquationSystem
enum  HomogeneousType { eHomogeneous1D, eHomogeneous2D, eHomogeneous3D, eNotHomogeneous }
 Parameter for homogeneous expansions. More...
 

Detailed Description

Class for iterative elastic system, in which linear elasticity is applied in substeps to attain a large deformation.

Definition at line 51 of file IterativeElasticSystem.h.

Constructor & Destructor Documentation

Nektar::IterativeElasticSystem::IterativeElasticSystem ( const LibUtilities::SessionReaderSharedPtr pSession)
protected

Definition at line 58 of file IterativeElasticSystem.cpp.

60  : LinearElasticSystem(pSession)
61 {
62 }
LinearElasticSystem(const LibUtilities::SessionReaderSharedPtr &pSession)
Default constructor.

Member Function Documentation

static EquationSystemSharedPtr Nektar::IterativeElasticSystem::create ( const LibUtilities::SessionReaderSharedPtr pSession)
inlinestatic

Creates an instance of this class.

Definition at line 58 of file IterativeElasticSystem.h.

References CellMLToNektar.cellml_metadata::p.

60  {
61  EquationSystemSharedPtr p = MemoryManager<
62  IterativeElasticSystem>::AllocateSharedPtr(pSession);
63  p->InitObject();
64  return p;
65  }
IterativeElasticSystem(const LibUtilities::SessionReaderSharedPtr &pSession)
boost::shared_ptr< EquationSystem > EquationSystemSharedPtr
A shared pointer to an EquationSystem object.
void Nektar::IterativeElasticSystem::v_DoSolve ( void  )
protectedvirtual

Solve elliptic linear elastic system.

The solve proceeds as follows:

  • Create a MultiRegions::GlobalLinSys object.
  • Evaluate a forcing function from the session file.
  • If the temperature term is enabled, evaluate this and add to forcing.
  • Apply Dirichlet boundary conditions.
  • Scatter forcing into the correct ordering according to the coupled assembly map.
  • Do the solve.
  • Scatter solution back to fields and backwards transform to physical space.

Reimplemented from Nektar::LinearElasticSystem.

Definition at line 128 of file IterativeElasticSystem.cpp.

References Nektar::SolverUtils::EquationSystem::m_fields, Nektar::SolverUtils::EquationSystem::m_graph, m_numSteps, m_repeatBCs, m_savedBCs, Nektar::SolverUtils::EquationSystem::m_session, Nektar::SolverUtils::EquationSystem::m_time, m_toDeform, Nektar::LibUtilities::ReduceMax, Nektar::GlobalMapping::UpdateGeometry(), Nektar::LinearElasticSystem::v_DoSolve(), Vmath::Vcopy(), and WriteGeometry().

129 {
130  int i, j, k;
131 
132  // Write initial geometry for consistency/script purposes
133  WriteGeometry(0);
134 
135  // Now loop over desired number of steps
136  for (i = 1; i <= m_numSteps; ++i)
137  {
138  int invalidElmtId = -1;
139 
140  // Perform solve for this iteration and update geometry accordingly.
143  WriteGeometry(i);
144 
145  // Check for invalid elements.
146  for (j = 0; j < m_fields[0]->GetExpSize(); ++j)
147  {
149  m_fields[0]->GetExp(j)->GetGeom()->GetGeomFactors();
150 
151  if (!geomFac->IsValid())
152  {
153  invalidElmtId =
154  m_fields[0]->GetExp(j)->GetGeom()->GetGlobalID();
155  break;
156  }
157  }
158 
159  m_session->GetComm()->AllReduce(invalidElmtId, LibUtilities::ReduceMax);
160 
161  // If we found an invalid element, exit loop without writing output.
162  if (invalidElmtId >= 0)
163  {
164  if (m_session->GetComm()->GetRank() == 0)
165  {
166  cout << "- Detected negative Jacobian in element "
167  << invalidElmtId << "; terminating at"
168  " step: "<<i<< endl;
169  }
170 
171  break;
172  }
173 
174  if (m_session->GetComm()->GetRank() == 0)
175  {
176  cout << "Step: " << i << endl;
177  }
178 
179  // Update boundary conditions
180  if (m_repeatBCs)
181  {
182  for (j = 0; j < m_fields.num_elements(); ++j)
183  {
184  string varName = m_session->GetVariable(j);
185  m_fields[j]->EvaluateBoundaryConditions(m_time, varName);
186  }
187  }
188  else
189  {
190  for (j = 0; j < m_fields.num_elements(); ++j)
191  {
192  const Array<OneD, const MultiRegions::ExpListSharedPtr>
193  &bndCondExp = m_fields[j]->GetBndCondExpansions();
194 
195  for (k = 0; k < m_toDeform.size(); ++k)
196  {
197  const int id = m_toDeform[k];
198  const int nCoeffs = bndCondExp[id]->GetNcoeffs();
199  Vmath::Vcopy(nCoeffs,
200  m_savedBCs[k][j], 1,
201  bndCondExp[id]->UpdateCoeffs(), 1);
202  }
203  }
204  }
205  }
206 }
NekDouble m_time
Current time of simulation.
int m_numSteps
Number of steps to split deformation across.
virtual void v_DoSolve()
Solve elliptic linear elastic system.
bool m_repeatBCs
Flag determining whether to repeat boundary conditions.
Array< OneD, Array< OneD, Array< OneD, NekDouble > > > m_savedBCs
Storage for boundary conditions.
std::vector< int > m_toDeform
Vector of boundary regions to deform.
void UpdateGeometry(SpatialDomains::MeshGraphSharedPtr graph, Array< OneD, MultiRegions::ExpListSharedPtr > &fields, bool modal)
Update geometry according to displacement that is in current fields.
Definition: Deform.cpp:59
boost::shared_ptr< GeomFactors > GeomFactorsSharedPtr
Pointer to a GeomFactors object.
Definition: GeomFactors.h:62
Array< OneD, MultiRegions::ExpListSharedPtr > m_fields
Array holding all dependent variables.
LibUtilities::SessionReaderSharedPtr m_session
The session reader.
SpatialDomains::MeshGraphSharedPtr m_graph
Pointer to graph defining mesh.
void Vcopy(int n, const T *x, const int incx, T *y, const int incy)
Definition: Vmath.cpp:1061
void WriteGeometry(const int i)
Write out a file in serial or directory in parallel containing new mesh geometry. ...
void Nektar::IterativeElasticSystem::v_GenerateSummary ( SolverUtils::SummaryList s)
protectedvirtual

Generate summary at runtime.

Reimplemented from Nektar::LinearElasticSystem.

Definition at line 123 of file IterativeElasticSystem.cpp.

References Nektar::LinearElasticSystem::v_GenerateSummary().

124 {
126 }
virtual void v_GenerateSummary(SolverUtils::SummaryList &s)
Generate summary at runtime.
void Nektar::IterativeElasticSystem::v_InitObject ( )
protectedvirtual

Set up the linear elasticity system.

This routine loads the E and nu variables from the session file, creates a coupled assembly map and creates containers for the statically condensed block matrix system.

Reimplemented from Nektar::LinearElasticSystem.

Definition at line 64 of file IterativeElasticSystem.cpp.

References ASSERTL0, Nektar::SolverUtils::EquationSystem::m_comm, Nektar::SolverUtils::EquationSystem::m_fields, m_numSteps, m_repeatBCs, m_savedBCs, Nektar::SolverUtils::EquationSystem::m_session, m_toDeform, Nektar::LibUtilities::ReduceMax, Vmath::Smul(), Nektar::LinearElasticSystem::v_InitObject(), and Vmath::Vcopy().

65 {
67 
68  const int nVel = m_fields[0]->GetCoordim(0);
69 
70  // Read in number of steps to take.
71  m_session->LoadParameter("NumSteps", m_numSteps, 0);
72  ASSERTL0(m_numSteps > 0, "You must specify at least one step");
73 
74  // Read in whether to repeatedly apply boundary conditions (for e.g.
75  // rotation purposes).
76  string bcType;
77  m_session->LoadSolverInfo("BCType", bcType, "Normal");
78  m_repeatBCs = bcType != "Normal";
79 
80  if (!m_repeatBCs)
81  {
82  // Loop over BCs, identify which ones we need to deform.
83  const Array<OneD, const SpatialDomains::BoundaryConditionShPtr>
84  &bndCond = m_fields[0]->GetBndConditions();
85 
86  for (int i = 0; i < bndCond.num_elements(); ++i)
87  {
88  if (boost::iequals(bndCond[i]->GetUserDefined(), "Wall"))
89  {
90  m_toDeform.push_back(i);
91  }
92  }
93 
94  int numDeform = m_toDeform.size();
95  m_comm->AllReduce(numDeform, LibUtilities::ReduceMax);
96  ASSERTL0(numDeform > 0, "You must specify at least one WALL tag on"
97  "a boundary condition");
98 
99  m_savedBCs = Array<OneD, Array<OneD, Array<OneD, NekDouble> > >(
100  m_toDeform.size());
101 
102  for (int i = 0; i < m_toDeform.size(); ++i)
103  {
104  m_savedBCs[i] = Array<OneD, Array<OneD, NekDouble> >(nVel);
105  for (int j = 0; j < nVel; ++j)
106  {
107  const int id = m_toDeform[i];
108  MultiRegions::ExpListSharedPtr bndCondExp =
109  m_fields[j]->GetBndCondExpansions()[id];
110  int nCoeffs = bndCondExp->GetNcoeffs();
111 
112  m_savedBCs[i][j] = Array<OneD, NekDouble>(nCoeffs);
113  Vmath::Smul(nCoeffs, 1.0/m_numSteps,
114  bndCondExp->GetCoeffs(), 1,
115  bndCondExp->UpdateCoeffs(), 1);
116  Vmath::Vcopy(nCoeffs, bndCondExp->GetCoeffs(), 1,
117  m_savedBCs[i][j], 1);
118  }
119  }
120  }
121 }
#define ASSERTL0(condition, msg)
Definition: ErrorUtil.hpp:198
virtual void v_InitObject()
Set up the linear elasticity system.
int m_numSteps
Number of steps to split deformation across.
bool m_repeatBCs
Flag determining whether to repeat boundary conditions.
LibUtilities::CommSharedPtr m_comm
Communicator.
Array< OneD, Array< OneD, Array< OneD, NekDouble > > > m_savedBCs
Storage for boundary conditions.
std::vector< int > m_toDeform
Vector of boundary regions to deform.
void Smul(int n, const T alpha, const T *x, const int incx, T *y, const int incy)
Scalar multiply y = alpha*y.
Definition: Vmath.cpp:213
boost::shared_ptr< ExpList > ExpListSharedPtr
Shared pointer to an ExpList object.
Array< OneD, MultiRegions::ExpListSharedPtr > m_fields
Array holding all dependent variables.
LibUtilities::SessionReaderSharedPtr m_session
The session reader.
void Vcopy(int n, const T *x, const int incx, T *y, const int incy)
Definition: Vmath.cpp:1061
void Nektar::IterativeElasticSystem::WriteGeometry ( const int  i)
protected

Write out a file in serial or directory in parallel containing new mesh geometry.

Definition at line 212 of file IterativeElasticSystem.cpp.

References CellMLToNektar.pycml::format, Nektar::SolverUtils::EquationSystem::m_fields, Nektar::SolverUtils::EquationSystem::m_session, and Nektar::LibUtilities::PortablePath().

Referenced by v_DoSolve().

213 {
214  fs::path filename;
215  stringstream s;
216  s << m_session->GetSessionName() << "-" << i;
217 
218  if (m_session->GetComm()->GetSize() > 1)
219  {
220  s << "_xml";
221 
222  string ss = s.str();
223  if(!fs::is_directory(ss))
224  {
225  fs::create_directory(ss);
226  }
227 
228  boost::format pad("P%1$07d.xml");
229  pad % m_session->GetComm()->GetRank();
230  filename = fs::path(ss) / fs::path(pad.str());
231  }
232  else
233  {
234  s << ".xml";
235  filename = fs::path(s.str());
236  }
237 
238  string fname = LibUtilities::PortablePath(filename);
239  m_fields[0]->GetGraph()->WriteGeometry(fname);
240 }
std::string PortablePath(const boost::filesystem::path &path)
create portable path on different platforms for boost::filesystem path
Definition: FileSystem.cpp:41
Array< OneD, MultiRegions::ExpListSharedPtr > m_fields
Array holding all dependent variables.
LibUtilities::SessionReaderSharedPtr m_session
The session reader.

Friends And Related Function Documentation

friend class MemoryManager< IterativeElasticSystem >
friend

Class may only be instantiated through the MemoryManager.

Definition at line 55 of file IterativeElasticSystem.h.

Member Data Documentation

string Nektar::IterativeElasticSystem::className
static
Initial value:
RegisterCreatorFunction("IterativeElasticSystem",

Name of class.

Definition at line 68 of file IterativeElasticSystem.h.

int Nektar::IterativeElasticSystem::m_numSteps
protected

Number of steps to split deformation across.

Definition at line 72 of file IterativeElasticSystem.h.

Referenced by v_DoSolve(), and v_InitObject().

bool Nektar::IterativeElasticSystem::m_repeatBCs
protected

Flag determining whether to repeat boundary conditions.

Definition at line 74 of file IterativeElasticSystem.h.

Referenced by v_DoSolve(), and v_InitObject().

Array<OneD, Array<OneD, Array<OneD, NekDouble> > > Nektar::IterativeElasticSystem::m_savedBCs
protected

Storage for boundary conditions.

Definition at line 76 of file IterativeElasticSystem.h.

Referenced by v_DoSolve(), and v_InitObject().

std::vector<int> Nektar::IterativeElasticSystem::m_toDeform
protected

Vector of boundary regions to deform.

Definition at line 78 of file IterativeElasticSystem.h.

Referenced by v_DoSolve(), and v_InitObject().