/**
* Consider the one dimensional Helmholtz equation,
* \f[\frac{d^2u}{dx^2}-\lambda u(x) = f(x),\f]
* supplemented with appropriate boundary conditions (which are
* contained in the data member #m_bndCondExpansions). Applying a
* \f$C^0\f$ continuous Galerkin discretisation, this equation leads to
* the following linear system:
* \f[\left( \boldsymbol{M}+\lambda\boldsymbol{L}\right)
* \boldsymbol{\hat{u}}_g=\boldsymbol{\hat{f}}\f]
* where \f$\boldsymbol{M}\f$ and \f$\boldsymbol{L}\f$ are the mass and
* Laplacian matrix respectively. This function solves the system above
* for the global coefficients \f$\boldsymbol{\hat{u}}\f$ by a call to
* the function #GlobalSolve.
*
* The values of the function \f$f(x)\f$ evaluated at the
* quadrature points \f$\boldsymbol{x}_i\f$ should be contained in the
* variable #m_phys of the ExpList object \a inarray. The resulting
* global coefficients \f$\boldsymbol{\hat{u}}_g\f$ are stored in the
* array #m_coeffs.
*
* @param inarray Input containing forcing function
* \f$\boldsymbol{f}\f$ at the quadrature points.
* @param outarray Output containing the coefficients
* \f$\boldsymbol{u}_g\f$
* @param lambda Parameter value.
* @param Sigma Coefficients of lambda.
* @param varcoeff Variable diffusivity coefficients.
* @param coeffstate
* @param dirForcing Dirichlet Forcing.
*/
void ContField1D::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)
{
// Inner product of forcing
int contNcoeffs = m_locToGloMap->GetNumGlobalCoeffs();
Array<OneD,NekDouble> wsp(contNcoeffs);
IProductWRTBase(inarray,wsp,eGlobal);
// Note -1.0 term necessary to invert forcing function to
// be consistent with matrix definition
Vmath::Neg(contNcoeffs, wsp, 1);
// Forcing function with weak boundary conditions
int i;
for(i = 0; i < m_bndCondExpansions.num_elements(); ++i)
{
if(m_bndConditions[i]->GetBoundaryConditionType() != SpatialDomains::eDirichlet)
{
wsp[m_locToGloMap->GetBndCondCoeffsToGlobalCoeffsMap(i)]
+= m_bndCondExpansions[i]->GetCoeff(0);
}
}
// Solve the system
GlobalLinSysKey key(StdRegions::eHelmholtz,
m_locToGloMap,factors,varcoeff);
if(flags.isSet(eUseGlobal))
{
GlobalSolve(key,wsp,outarray,dirForcing);
}
else
{
Array<OneD,NekDouble> tmp(contNcoeffs,0.0);
GlobalSolve(key,wsp,tmp,dirForcing);
GlobalToLocal(tmp,outarray);
}
}
int main(int argc, char *argv[])
{
LibUtilities::SessionReaderSharedPtr vSession = LibUtilities::SessionReader::CreateInstance(argc, argv);
LibUtilities::CommSharedPtr vComm = vSession->GetComm();
MultiRegions::ContField3DHomogeneous1DSharedPtr Exp_u, Exp_v, Exp_w;
StdRegions::ConstFactorMap factors;
FlagList flags;
if( (argc != 2) && (argc != 3))
{
fprintf(stderr,"Usage: Deriv3DHomo2D meshfile [SysSolnType] \n");
exit(1);
}
//----------------------------------------------
// Read in mesh from input file
SpatialDomains::MeshGraphSharedPtr graph2D = MemoryManager<SpatialDomains::MeshGraph2D>::AllocateSharedPtr(vSession);
//----------------------------------------------
//----------------------------------------------
// Define Expansion
int nzpoints;
NekDouble lz;
int FFT;
vSession->LoadParameter("HomModesZ", nzpoints);
vSession->LoadParameter("LZ", lz);
vSession->LoadParameter("USEFFT", FFT);
bool useFFT = false;
bool deal = false;
if(FFT==1){useFFT = true;}
const LibUtilities::PointsKey PkeyZ(nzpoints,LibUtilities::eFourierSingleModeSpaced);
const LibUtilities::BasisKey BkeyZ(LibUtilities::eFourierHalfModeRe,nzpoints,PkeyZ);
Exp_u = MemoryManager<MultiRegions::ContField3DHomogeneous1D>::AllocateSharedPtr(vSession,BkeyZ,lz,useFFT,deal,graph2D,vSession->GetVariable(0));
Exp_v = MemoryManager<MultiRegions::ContField3DHomogeneous1D>::AllocateSharedPtr(vSession,BkeyZ,lz,useFFT,deal,graph2D,vSession->GetVariable(1));
Exp_w = MemoryManager<MultiRegions::ContField3DHomogeneous1D>::AllocateSharedPtr(vSession,BkeyZ,lz,useFFT,deal,graph2D,vSession->GetVariable(2));
//----------------------------------------------
// Print summary of solution details
flags.set(eUseGlobal, false);
const SpatialDomains::ExpansionMap &expansions = graph2D->GetExpansions();
LibUtilities::BasisKey bkey0 = expansions.begin()->second->m_basisKeyVector[0];
cout << "Calculating Derivatives (Homogeneous in z-plane):" << endl;
cout << " Lz : " << lz << endl;
cout << " N.modes : " << bkey0.GetNumModes() << endl;
cout << " N.Z h**o modes : " << BkeyZ.GetNumModes() << endl;
cout << endl;
//----------------------------------------------
//----------------------------------------------
// Set up coordinates of mesh for Forcing function evaluation
int nq = Exp_u->GetTotPoints();
Array<OneD,NekDouble> xc0,xc1,xc2;
xc0 = Array<OneD,NekDouble>(nq,0.0);
xc1 = Array<OneD,NekDouble>(nq,0.0);
xc2 = Array<OneD,NekDouble>(nq,0.0);
Exp_u->GetCoords(xc0,xc1,xc2);
//----------------------------------------------
Array<OneD,NekDouble> dudx,dvdy,dwdz;
Array<OneD,NekDouble> dump;
dump = Array<OneD,NekDouble>(nq,0.0);
dudx = Array<OneD,NekDouble>(nq,0.0);
dvdy = Array<OneD,NekDouble>(nq,0.0);
dwdz = Array<OneD,NekDouble>(nq,0.0);
//----------------------------------------------
// Define initial fields
LibUtilities::EquationSharedPtr ffunc_u = vSession->GetFunction("InitialCondition", 0);
LibUtilities::EquationSharedPtr ffunc_v = vSession->GetFunction("InitialCondition", 1);
LibUtilities::EquationSharedPtr ffunc_w = vSession->GetFunction("InitialCondition", 2);
LibUtilities::EquationSharedPtr exac_u = vSession->GetFunction("ExactSolution", 0);
LibUtilities::EquationSharedPtr exac_v = vSession->GetFunction("ExactSolution", 1);
LibUtilities::EquationSharedPtr exac_w = vSession->GetFunction("ExactSolution", 2);
ffunc_u->Evaluate(xc0,xc1,xc2,Exp_u->UpdatePhys());
ffunc_v->Evaluate(xc0,xc1,xc2,Exp_v->UpdatePhys());
ffunc_w->Evaluate(xc0,xc1,xc2,Exp_w->UpdatePhys());
exac_u->Evaluate(xc0,xc1,xc2,dudx);
exac_v->Evaluate(xc0,xc1,xc2,dvdy);
exac_w->Evaluate(xc0,xc1,xc2,dwdz);
//----------------------------------------------
//Taking derivative and printing the error
cout << "Deriv u" << endl;
Exp_u->PhysDeriv(Exp_u->GetPhys(),Exp_u->UpdatePhys(),dump,dump);
cout << "Deriv u done" << endl;
cout << "L infinity error: " << Exp_u->Linf(Exp_u->GetPhys(), dudx) << endl;
cout << "L 2 error : " << Exp_u->L2 (Exp_u->GetPhys(), dudx) << endl;
Exp_v->PhysDeriv(Exp_v->GetPhys(),dump,Exp_v->UpdatePhys(),dump);
cout << "L infinity error: " << Exp_v->Linf(Exp_v->GetPhys(), dvdy) << endl;
cout << "L 2 error : " << Exp_v->L2 (Exp_v->GetPhys(), dvdy) << endl;
Exp_w->PhysDeriv(Exp_w->GetPhys(),dump,dump,Exp_w->UpdatePhys());
cout << "L infinity error: " << Exp_w->Linf(Exp_w->GetPhys(), dwdz) << endl;
cout << "L 2 error : " << Exp_w->L2 (Exp_w->GetPhys(), dwdz) << endl;
return 0;
}
int main(int argc, char *argv[])
{
MultiRegions::ContField3DSharedPtr Exp,Fce,Sol;
int i, nq, coordim;
Array<OneD,NekDouble> fce,sol;
Array<OneD,NekDouble> xc0,xc1,xc2;
NekDouble lambda;
vector<string> vFilenames;
if(argc != 6)
{
fprintf(stderr,"Usage: TimingCGHelmSolve3D Type MeshSize NumModes OptimisationLevel OperatorToTest\n");
fprintf(stderr," where: - Type is one of the following:\n");
fprintf(stderr," 1: Regular Hexahedrons \n");
fprintf(stderr," 2: Deformed Hexahedrons (may not be supported) \n");
fprintf(stderr," 3: Regular Tetrahedrons \n");
fprintf(stderr," where: - MeshSize is 1/h \n");
fprintf(stderr," where: - NumModes is the number of 1D modes of the expansion \n");
fprintf(stderr," where: - OptimisationLevel is one of the following:\n");
fprintf(stderr," 0: Use elemental sum-factorisation evaluation \n");
fprintf(stderr," 2: Use elemental matrix evaluation using blockmatrices \n");
fprintf(stderr," 3: Use global matrix evaluation \n");
fprintf(stderr," 4: Use optimal evaluation (this option requires optimisation-files being set-up) \n");
fprintf(stderr," where: - OperatorToTest is one of the following:\n");
fprintf(stderr," 0: BwdTrans \n");
fprintf(stderr," 1: Inner Product \n");
fprintf(stderr," 2: Mass Matrix \n");
exit(1);
}
boost::filesystem::path basePath(BASE_PATH);
int Type = atoi(argv[1]);
int MeshSize = atoi(argv[2]);
int NumModes = atoi(argv[3]);
int optLevel = atoi(argv[4]);
int opToTest = atoi(argv[5]);
//----------------------------------------------
// Retrieve the necessary input files
stringstream MeshFileName;
stringstream MeshFileDirectory;
stringstream BCfileName;
stringstream ExpansionsFileName;
stringstream GlobOptFileName;
switch(Type)
{
case 1:
{
MeshFileDirectory << "RegularHexMeshes";
MeshFileName << "UnitCube_RegularHexMesh_h_1_" << MeshSize << ".xml";
}
break;
case 2:
{
MeshFileDirectory << "DeformedHexMeshes";
MeshFileName << "UnitCube_DeformedHexMesh_h_1_" << MeshSize << ".xml";
}
break;
case 3:
{
MeshFileDirectory << "RegularTetMeshes";
MeshFileName << "UnitCube_RegularTetMesh_h_1_" << MeshSize << ".xml";
}
break;
default:
{
cerr << "Type should be equal to one of the following values: "<< endl;
cerr << " 1: Regular Hexahedrons" << endl;
cerr << " 2: Deformed Hexahedrons" << endl;
cerr << " 3: Regular Tetrahedrons" << endl;
exit(1);
}
}
BCfileName << "UnitCube_DirichletBoundaryConditions.xml";
ExpansionsFileName << "NektarExpansionsNummodes" << NumModes << ".xml";
switch(optLevel)
{
case 0:
{
GlobOptFileName << "NoGlobalMat.xml";
}
break;
case 2:
{
GlobOptFileName << "DoBlockMat.xml";
}
break;
case 3:
{
GlobOptFileName << "DoGlobalMat.xml";
}
break;
case 4:
{
ASSERTL0(false,"Optimisation level not set up");
}
break;
default:
{
ASSERTL0(false,"Unrecognised optimisation level");
}
}
boost::filesystem::path MeshFilePath = basePath /
boost::filesystem::path("InputFiles") /
boost::filesystem::path("Geometry") /
boost::filesystem::path(MeshFileDirectory.str()) /
boost::filesystem::path(MeshFileName.str());
vFilenames.push_back(PortablePath(MeshFilePath));
boost::filesystem::path BCfilePath = basePath /
boost::filesystem::path("InputFiles") /
boost::filesystem::path("Conditions") /
boost::filesystem::path(BCfileName.str());
vFilenames.push_back(PortablePath(BCfilePath));
boost::filesystem::path ExpansionsFilePath = basePath /
boost::filesystem::path("InputFiles") /
boost::filesystem::path("Expansions") /
boost::filesystem::path(ExpansionsFileName.str());
vFilenames.push_back(PortablePath(ExpansionsFilePath));
boost::filesystem::path GlobOptFilePath = basePath /
boost::filesystem::path("InputFiles") /
boost::filesystem::path("Optimisation") /
boost::filesystem::path(GlobOptFileName.str());
vFilenames.push_back(PortablePath(GlobOptFilePath));
//----------------------------------------------
StdRegions::MatrixType type;
switch (opToTest)
{
case 0:
type = StdRegions::eBwdTrans;
break;
case 1:
type = StdRegions::eIProductWRTBase;
break;
case 2:
type = StdRegions::eMass;
break;
case 3:
type = StdRegions::eHelmholtz;
break;
default:
cout << "Operator " << opToTest << " not defined." << endl;
}
LibUtilities::SessionReaderSharedPtr vSession
= LibUtilities::SessionReader::CreateInstance(argc, argv, vFilenames);
//----------------------------------------------
// Read in mesh from input file
SpatialDomains::MeshGraphSharedPtr graph3D = MemoryManager<SpatialDomains::MeshGraph3D>::AllocateSharedPtr(vSession);
//----------------------------------------------
//----------------------------------------------
// Print summary of solution details
lambda = vSession->GetParameter("Lambda");
//----------------------------------------------
//----------------------------------------------
// Define Expansion
Exp = MemoryManager<MultiRegions::ContField3D>
::AllocateSharedPtr(vSession, graph3D, vSession->GetVariable(0));
//----------------------------------------------
int NumElements = Exp->GetExpSize();
//----------------------------------------------
// Set up coordinates of mesh for Forcing function evaluation
coordim = Exp->GetCoordim(0);
nq = Exp->GetTotPoints();
xc0 = Array<OneD,NekDouble>(nq,0.0);
xc1 = Array<OneD,NekDouble>(nq,0.0);
xc2 = Array<OneD,NekDouble>(nq,0.0);
switch(coordim)
{
case 1:
Exp->GetCoords(xc0);
break;
case 2:
Exp->GetCoords(xc0,xc1);
break;
case 3:
Exp->GetCoords(xc0,xc1,xc2);
break;
}
//----------------------------------------------
//----------------------------------------------
// Define forcing function for first variable defined in file
fce = Array<OneD,NekDouble>(nq);
LibUtilities::EquationSharedPtr ffunc = vSession->GetFunction("Forcing",0);
for(i = 0; i < nq; ++i)
{
fce[i] = ffunc->Evaluate(xc0[i],xc1[i],xc2[i]);
}
//----------------------------------------------
//----------------------------------------------
// Setup expansion containing the forcing function
Fce = MemoryManager<MultiRegions::ContField3D>::AllocateSharedPtr(*Exp);
Fce->SetPhys(fce);
//----------------------------------------------
//----------------------------------------------
// See if there is an exact solution, if so
// evaluate and plot errors
LibUtilities::EquationSharedPtr ex_sol = vSession->GetFunction("ExactSolution",0);
//----------------------------------------------
// evaluate exact solution
sol = Array<OneD,NekDouble>(nq);
for(i = 0; i < nq; ++i)
{
sol[i] = ex_sol->Evaluate(xc0[i],xc1[i],xc2[i]);
}
Sol = MemoryManager<MultiRegions::ContField3D>::AllocateSharedPtr(*Exp);
Sol->SetPhys(sol);
Sol->SetPhysState(true);
//----------------------------------------------
NekDouble L2Error;
NekDouble LinfError;
if (type == StdRegions::eHelmholtz)
{
FlagList flags;
flags.set(eUseGlobal, true);
StdRegions::ConstFactorMap factors;
factors[StdRegions::eFactorLambda] = lambda;
//----------------------------------------------
// Helmholtz solution taking physical forcing
Exp->HelmSolve(Fce->GetPhys(), Exp->UpdateCoeffs(),flags,factors);
// GeneralMatrixOp does not impose boundary conditions.
// MultiRegions::GlobalMatrixKey key(type, lambda, Exp->GetLocalToGlobalMap());
// Exp->GeneralMatrixOp (key, Fce->GetPhys(),Exp->UpdateContCoeffs(), true);
//----------------------------------------------
//----------------------------------------------
// Backward Transform Solution to get solved values at
Exp->BwdTrans(Exp->GetCoeffs(), Exp->UpdatePhys(),
MultiRegions::eGlobal);
//----------------------------------------------
L2Error = Exp->L2 (Sol->GetPhys());
LinfError = Exp->Linf(Sol->GetPhys());
}
else
{
Exp->FwdTrans(Sol->GetPhys(), Exp->UpdateCoeffs(),
MultiRegions::eGlobal);
//----------------------------------------------
// Backward Transform Solution to get solved values at
Exp->BwdTrans(Exp->GetCoeffs(), Exp->UpdatePhys(),
MultiRegions::eGlobal);
//----------------------------------------------
L2Error = Exp->L2 (Sol->GetPhys());
LinfError = Exp->Linf(Sol->GetPhys());
}
//--------------------------------------------
// alternative error calculation
/* const LibUtilities::PointsKey PkeyT1(30,LibUtilities::eGaussLobattoLegendre);
const LibUtilities::PointsKey PkeyT2(30,LibUtilities::eGaussRadauMAlpha1Beta0);
const LibUtilities::PointsKey PkeyQ1(30,LibUtilities::eGaussLobattoLegendre);
const LibUtilities::PointsKey PkeyQ2(30,LibUtilities::eGaussLobattoLegendre);
const LibUtilities::BasisKey BkeyT1(LibUtilities::eModified_A,NumModes,PkeyT1);
const LibUtilities::BasisKey BkeyT2(LibUtilities::eModified_B,NumModes,PkeyT2);
const LibUtilities::BasisKey BkeyQ1(LibUtilities::eModified_A,NumModes,PkeyQ1);
const LibUtilities::BasisKey BkeyQ2(LibUtilities::eModified_A,NumModes,PkeyQ2);
MultiRegions::ExpList3DSharedPtr ErrorExp =
MemoryManager<MultiRegions::ExpList3D>::AllocateSharedPtr(BkeyT1,BkeyT2,BkeyT3,BkeyQ1,BkeyQ2,BkeyQ3,graph3D);
int ErrorCoordim = ErrorExp->GetCoordim(0);
int ErrorNq = ErrorExp->GetTotPoints();
Array<OneD,NekDouble> ErrorXc0(ErrorNq,0.0);
Array<OneD,NekDouble> ErrorXc1(ErrorNq,0.0);
Array<OneD,NekDouble> ErrorXc2(ErrorNq,0.0);
switch(ErrorCoordim)
{
case 1:
ErrorExp->GetCoords(ErrorXc0);
break;
case 2:
ErrorExp->GetCoords(ErrorXc0,ErrorXc1);
break;
case 3:
ErrorExp->GetCoords(ErrorXc0,ErrorXc1,ErrorXc2);
break;
}
// evaluate exact solution
Array<OneD,NekDouble> ErrorSol(ErrorNq);
for(i = 0; i < ErrorNq; ++i)
{
ErrorSol[i] = ex_sol->Evaluate(ErrorXc0[i],ErrorXc1[i],ErrorXc2[i]);
}
// calcualte spectral/hp approximation on the quad points of this new
// expansion basis
Exp->GlobalToLocal(Exp->GetContCoeffs(),ErrorExp->UpdateCoeffs());
ErrorExp->BwdTrans_IterPerExp(ErrorExp->GetCoeffs(),ErrorExp->UpdatePhys());
NekDouble L2ErrorBis = ErrorExp->L2 (ErrorSol);
NekDouble LinfErrorBis = ErrorExp->Linf(ErrorSol);
*/
//--------------------------------------------
#if 0
cout << "L infinity error: " << LinfErrorBis << endl;
cout << "L 2 error: " << L2ErrorBis << endl;
#endif
//----------------------------------------------
NekDouble exeTime;
int NumCalls;
exeTime = TimeMatrixOp(type, Exp, Fce, NumCalls, lambda);
int nLocCoeffs = Exp->GetLocalToGlobalMap()->GetNumLocalCoeffs();
int nGlobCoeffs = Exp->GetLocalToGlobalMap()->GetNumGlobalCoeffs();
int nLocBndCoeffs = Exp->GetLocalToGlobalMap()->GetNumLocalBndCoeffs();
int nGlobBndCoeffs = Exp->GetLocalToGlobalMap()->GetNumGlobalBndCoeffs();
int nLocDirCoeffs = Exp->GetLocalToGlobalMap()->GetNumLocalDirBndCoeffs();
int nGlobDirCoeffs = Exp->GetLocalToGlobalMap()->GetNumGlobalDirBndCoeffs();
// MultiRegions::GlobalMatrixKey key(StdRegions::eHelmholtz,lambda,Exp->GetLocalToGlobalMap());
// int nnz = Exp->GetGlobalMatrixNnz(key);
ostream &outfile = cout;
outfile.precision(0);
outfile << setw(10) << Type << " ";
outfile << setw(10) << NumElements << " ";
outfile << setw(10) << NumModes << " ";
outfile << setw(10) << NumCalls << " ";
outfile << setw(10) << fixed << noshowpoint << exeTime << " ";
outfile << setw(10) << fixed << noshowpoint << ((NekDouble) (exeTime/((NekDouble)NumCalls))) << " ";
outfile.precision(7);
outfile << setw(15) << scientific << noshowpoint << L2Error << " ";
outfile << setw(15) << scientific << noshowpoint << "- "; // << L2ErrorBis << " ";
outfile << setw(15) << scientific << noshowpoint << LinfError << " ";
outfile << setw(15) << scientific << noshowpoint << "- ";// << LinfErrorBis << " ";
outfile << setw(10) << nLocCoeffs << " ";
outfile << setw(10) << nGlobCoeffs << " ";
outfile << setw(10) << nLocBndCoeffs << " ";
outfile << setw(10) << nGlobBndCoeffs << " ";
outfile << setw(10) << nLocDirCoeffs << " ";
outfile << setw(10) << nGlobDirCoeffs << " ";
outfile << setw(10) << "- "; // << nnz << " ";
outfile << setw(10) << optLevel << " ";
outfile << endl;
//----------------------------------------------
return 0;
}
FlagList flag::children() {
FlagList children;
foreach(QObject *obj, QObject::children()) {
children.append((flag*) obj);
}
