示例#1
0
        FilterEnergyBase::FilterEnergyBase(
            const LibUtilities::SessionReaderSharedPtr &pSession,
            const std::map<std::string, std::string> &pParams,
            const bool pConstDensity)
            : Filter        (pSession),
              m_index       (-1),
              m_homogeneous (false),
              m_planes      (),
              m_constDensity(pConstDensity)
        {
            std::string outName;
            if (pParams.find("OutputFile") == pParams.end())
            {
                outName = m_session->GetSessionName();
            }
            else
            {
                ASSERTL0(!(pParams.find("OutputFile")->second.empty()),
                         "Missing parameter 'OutputFile'.");
                outName = pParams.find("OutputFile")->second;
            }

            m_comm = pSession->GetComm();
            outName += ".eny";
            if (m_comm->GetRank() == 0)
            {
                m_outFile.open(outName.c_str());
                ASSERTL0(m_outFile.good(), "Unable to open: '" + outName + "'");
                m_outFile.setf(ios::scientific, ios::floatfield);
                m_outFile << "# Time                Kinetic energy        "
                          << "Enstrophy"
                          << endl
                          << "# ---------------------------------------------"
                          << "--------------"
                          << endl;
            }
            pSession->LoadParameter("LZ", m_homogeneousLength, 0.0);

            ASSERTL0(pParams.find("OutputFrequency") != pParams.end(),
                     "Missing parameter 'OutputFrequency'.");
            m_outputFrequency = atoi(
                pParams.find("OutputFrequency")->second.c_str());
        }
示例#2
0
        /**
         * Allocates a new DNekSparseMat object from the given specification.
         * @param   rows        Number of rows in matrix.
         * @param   columns     Number of columns in matrix.
         * @param   cooMat      ?
         */
        GlobalMatrix::GlobalMatrix(
                                   const LibUtilities::SessionReaderSharedPtr& pSession,
                                   unsigned int rows, 
                                   unsigned int columns,
                                   const COOMatType &cooMat,
                                   const MatrixStorage& matStorage):
            m_smvbsrmatrix(),
            m_rows(rows),
            m_mulCallsCounter(0)
        {
            MatrixStorageType storageType = pSession->
                GetSolverInfoAsEnum<MatrixStorageType>("GlobalMatrixStorageType");

            unsigned int brows, bcols;

            // Size of dense matrix sub-blocks
            int block_size = 1;

            BCOMatType bcoMat;

            // assuming current sparse format allows
            // block-sparse data representation

            if(pSession->DefinesParameter("SparseBlockSize"))
            {
                pSession->LoadParameter("SparseBlockSize", block_size);
                ASSERTL1(block_size > 0,"SparseBlockSize parameter must to be positive");
            }

            brows = rows / block_size + (rows % block_size > 0);
            bcols = columns / block_size + (columns % block_size > 0);

            if (rows % block_size > 0)  m_copyOp = true;

            if (m_copyOp)
            {
                m_tmpin  = Array<OneD, NekDouble> (brows*block_size, 0.0);
                m_tmpout = Array<OneD, NekDouble> (brows*block_size, 0.0);
            }

            convertCooToBco(brows, bcols, block_size, cooMat, bcoMat);

            size_t matBytes;
            switch(storageType)
            {
                case eSmvBSR:
                    {

                    // Create zero-based Smv-multiply BSR sparse storage holder
                    DNekSmvBsrMat::SparseStorageSharedPtr sparseStorage =
                            MemoryManager<DNekSmvBsrMat::StorageType>::
                                    AllocateSharedPtr(
                                        brows, bcols, block_size, bcoMat, matStorage );

                    // Create sparse matrix
                    m_smvbsrmatrix = MemoryManager<DNekSmvBsrMat>::
                                            AllocateSharedPtr( sparseStorage );

                    matBytes = m_smvbsrmatrix->GetMemoryFootprint();

                    }
                    break;

                default:
                    NEKERROR(ErrorUtil::efatal,"Unsupported sparse storage type chosen");
            }

            cout << "Global matrix storage type: " 
                    << MatrixStorageTypeMap[storageType] << endl;
            std::cout << "Global matrix memory, bytes = " << matBytes;
            if (matBytes/(1024*1024) > 0)
            {
                std::cout << " ("<< matBytes/(1024*1024) <<" MB)" << std::endl;
            }
            else
            {
                std::cout << " ("<< matBytes/1024 <<" KB)" << std::endl;
            }
            std::cout << "Sparse storage block size = " << block_size << std::endl;
        }
示例#3
0
int main(int argc, char *argv[])
{
    string fname = std::string(argv[2]);
    int fdot = fname.find_last_of('.');
    if (fdot != std::string::npos)
    {
        string ending = fname.substr(fdot);

        // If .chk or .fld we exchange the extension in the output file.
        // For all other files (e.g. .bse) we append the extension to avoid
        // conflicts.
        if (ending == ".chk" || ending == ".fld")
        {
            fname = fname.substr(0,fdot);
        }
    }

    fname = fname + ".txt";

    int cnt;
    int id1, id2;
    int i, j, n, e, b;
    Array<OneD, NekDouble> auxArray;

    int nBndEdgePts, nBndEdges, nBndRegions;

    if (argc < 3)
    {
        fprintf(stderr,
                "Usage: ExtractSurface3DCFS meshfile fieldFile\n");
        fprintf(stderr,
                "Extracts a surface from a 3D fld file"
                "(only for CompressibleFlowSolver and purely 3D .fld files)\n");
        exit(1);
    }

    LibUtilities::SessionReaderSharedPtr vSession
        = LibUtilities::SessionReader::CreateInstance(3, argv);

    std::string                         m_ViscosityType;

    NekDouble                           m_gamma;
    NekDouble                           m_pInf;
    NekDouble                           m_rhoInf;
    NekDouble                           m_uInf;
    NekDouble                           m_vInf;
    NekDouble                           m_wInf;
    NekDouble                           m_gasConstant;
    NekDouble                           m_Twall;
    NekDouble                           m_mu;
    NekDouble                           m_thermalConductivity;

    int m_spacedim = 3;
    int nDimensions = m_spacedim;
    int phys_offset;

    // Get gamma parameter from session file.
    ASSERTL0(vSession->DefinesParameter("Gamma"),
             "Compressible flow sessions must define a Gamma parameter.");
    vSession->LoadParameter("Gamma", m_gamma, 1.4);

    // Get E0 parameter from session file.
    ASSERTL0(vSession->DefinesParameter("pInf"),
             "Compressible flow sessions must define a pInf parameter.");
    vSession->LoadParameter("pInf", m_pInf, 101325);

    // Get rhoInf parameter from session file.
    ASSERTL0(vSession->DefinesParameter("rhoInf"),
             "Compressible flow sessions must define a rhoInf parameter.");
    vSession->LoadParameter("rhoInf", m_rhoInf, 1.225);

    // Get uInf parameter from session file.
    ASSERTL0(vSession->DefinesParameter("uInf"),
             "Compressible flow sessions must define a uInf parameter.");
    vSession->LoadParameter("uInf", m_uInf, 0.1);

    // Get vInf parameter from session file.
    if (m_spacedim == 2 || m_spacedim == 3)
    {
        ASSERTL0(vSession->DefinesParameter("vInf"),
                 "Compressible flow sessions must define a vInf parameter"
                 "for 2D/3D problems.");
        vSession->LoadParameter("vInf", m_vInf, 0.0);
    }

    // Get wInf parameter from session file.
    if (m_spacedim == 3)
    {
        ASSERTL0(vSession->DefinesParameter("wInf"),
                 "Compressible flow sessions must define a wInf parameter"
                 "for 3D problems.");
        vSession->LoadParameter("wInf", m_wInf, 0.0);
    }

    vSession->LoadParameter ("GasConstant",   m_gasConstant,   287.058);
    vSession->LoadParameter ("Twall",         m_Twall,         300.15);
    vSession->LoadSolverInfo("ViscosityType", m_ViscosityType, "Constant");
    vSession->LoadParameter ("mu",            m_mu,            1.78e-05);
    vSession->LoadParameter ("thermalConductivity",
                             m_thermalConductivity, 0.0257);

    //--------------------------------------------------------------------------
    // Read in mesh from input file
    string meshfile(argv[1]);
    SpatialDomains::MeshGraphSharedPtr graphShPt =
        SpatialDomains::MeshGraph::Read(vSession);
    //--------------------------------------------------------------------------

    //--------------------------------------------------------------------------
    // Import field file
    string                                          fieldFile(argv[2]);
    vector<LibUtilities::FieldDefinitionsSharedPtr> fieldDef;
    vector<vector<NekDouble> >                      fieldData;

    LibUtilities::Import(fieldFile, fieldDef, fieldData);
    //--------------------------------------------------------------------------

    //--------------------------------------------------------------------------
    // Set up Expansion information
    vector< vector<LibUtilities::PointsType> > pointsType;
    for (i = 0; i < fieldDef.size(); ++i)
    {
        vector<LibUtilities::PointsType> ptype;
        for (j = 0; j < 3; ++j)
        {
            ptype.push_back(LibUtilities::ePolyEvenlySpaced);
        }
        pointsType.push_back(ptype);
    }
    graphShPt->SetExpansions(fieldDef, pointsType);

    //--------------------------------------------------------------------------


    //--------------------------------------------------------------------------
    // Define Expansion
    int nfields = fieldDef[0]->m_fields.size();
    Array<OneD, MultiRegions::ExpListSharedPtr> Exp(nfields);
    Array<OneD, MultiRegions::ExpListSharedPtr> pFields(nfields);

    for(i = 0; i < pFields.num_elements(); i++)
    {
        pFields[i] = MemoryManager<MultiRegions
                                   ::DisContField3D>::AllocateSharedPtr(vSession, graphShPt,
                                                                        vSession->GetVariable(i));
    }

    MultiRegions::ExpList3DSharedPtr Exp3D;
    Exp3D = MemoryManager<MultiRegions::ExpList3D>
        ::AllocateSharedPtr(vSession, graphShPt);

    Exp[0] = Exp3D;

    for (i = 1; i < nfields; ++i)
    {
        Exp[i] = MemoryManager<MultiRegions::ExpList3D>
            ::AllocateSharedPtr(*Exp3D);
    }

    // Count of the point on the surface
    int nSurfacePts = 0;
    if (pFields[0]->GetBndCondExpansions().num_elements())
    {
        nSurfacePts = 0;
        cnt = 0;
        nBndRegions = pFields[0]->GetBndCondExpansions().num_elements();
        for (b = 0; b < nBndRegions; ++b)
        {
            nBndEdges = pFields[0]->GetBndCondExpansions()[b]->GetExpSize();
            for (e = 0; e < nBndEdges; ++e)
            {
                nBndEdgePts = pFields[0]->
                    GetBndCondExpansions()[b]->GetExp(e)->GetTotPoints();

                if (pFields[0]->GetBndConditions()[b]->
                        GetUserDefined() == "WallViscous" ||
                    pFields[0]->GetBndConditions()[b]->
                        GetUserDefined() == "WallAdiabatic" ||
                    pFields[0]->GetBndConditions()[b]->
                        GetUserDefined() == "Wall")
                {
                    nSurfacePts += nBndEdgePts;
                }
            }
        }
    }


    int nSolutionPts = pFields[0]->GetNpoints();
    int nTracePts    = pFields[0]->GetTrace()->GetTotPoints();
    int nElements    = pFields[0]->GetExpSize();

    Array<OneD, NekDouble> tmp(nSolutionPts, 0.0);

    Array<OneD, NekDouble> x(nSolutionPts);
    Array<OneD, NekDouble> y(nSolutionPts);
    Array<OneD, NekDouble> z(nSolutionPts);

    Array<OneD, NekDouble> traceX(nTracePts);
    Array<OneD, NekDouble> traceY(nTracePts);
    Array<OneD, NekDouble> traceZ(nTracePts);

    Array<OneD, NekDouble> surfaceX(nSurfacePts);
    Array<OneD, NekDouble> surfaceY(nSurfacePts);
    Array<OneD, NekDouble> surfaceZ(nSurfacePts);

    pFields[0]->GetCoords(x, y, z);

    pFields[0]->ExtractTracePhys(x, traceX);
    pFields[0]->ExtractTracePhys(y, traceY);
    pFields[0]->ExtractTracePhys(z, traceZ);
    //--------------------------------------------------------------------------

    //--------------------------------------------------------------------------
    // Copy data from field file
    Array<OneD, Array<OneD, NekDouble> > uFields(nfields);
    Array<OneD, Array<OneD, NekDouble> > traceFields(nfields);
    Array<OneD, Array<OneD, NekDouble> > surfaceFields(nfields);

    // Extract the physical values of the solution at the boundaries
    for (j = 0; j < nfields; ++j)
    {
        uFields[j]       = Array<OneD, NekDouble>(nSolutionPts, 0.0);
        traceFields[j]   = Array<OneD, NekDouble>(nTracePts, 0.0);
        surfaceFields[j] = Array<OneD, NekDouble>(nSurfacePts, 0.0);


        for (i = 0; i < fieldData.size(); ++i)
        {
            Exp[j]->ExtractDataToCoeffs(fieldDef[i], fieldData[i],
                                        fieldDef[i]->m_fields[j],
                                        Exp[j]->UpdateCoeffs());
        }
        Exp[j]->BwdTrans(Exp[j]->GetCoeffs(), Exp[j]->UpdatePhys());
        Vmath::Vcopy(nSolutionPts, Exp[j]->GetPhys(), 1, uFields[j], 1);
        pFields[0]->ExtractTracePhys(uFields[j], traceFields[j]);
    }


    //Fields to add in the output file
    int nfieldsAdded = 34;
    Array<OneD, Array<OneD, NekDouble> > traceFieldsAdded(nfieldsAdded);
    Array<OneD, Array<OneD, NekDouble> > surfaceFieldsAdded(nfieldsAdded);

    for (j = 0; j < nfieldsAdded; ++j)
    {
        traceFieldsAdded[j] = Array<OneD, NekDouble>(nTracePts, 0.0);
        surfaceFieldsAdded[j] = Array<OneD, NekDouble>(nSurfacePts, 0.0);
    }

    /******** Evaluation of normals and tangents on the trace *****************
     * nx -> traceFieldsAdded[0];
     * ny -> traceFieldsAdded[1];
     * nz -> traceFieldsAdded[2];
     * bx -> traceFieldsAdded[3];
     * by -> traceFieldsAdded[4];
     * bz -> traceFieldsAdded[5];
     * tx -> traceFieldsAdded[6];
     * ty -> traceFieldsAdded[7];
     * tz -> traceFieldsAdded[8];

     ***************************************************************************/

    Array<OneD, Array<OneD, NekDouble> > m_traceNormals (nDimensions);
    for(i = 0; i < nDimensions; ++i)
    {
        m_traceNormals[i] = Array<OneD, NekDouble> (nTracePts, 0.0);
    }
    pFields[0]->GetTrace()->GetNormals(m_traceNormals);

    Array<OneD, Array<OneD, NekDouble> > m_traceTangents (nDimensions);
    Array<OneD, Array<OneD, NekDouble> > m_traceBinormals (nDimensions);
    Array<OneD, Array<OneD, NekDouble> > h (nDimensions);
    Array<OneD, NekDouble > tmpNorm (nTracePts, 1.0);
    Array<OneD, NekDouble > NormH (nTracePts, 0.0);
    Array<OneD, NekDouble > tmpTrace (nTracePts, 0.0);


    for(i = 0; i < nDimensions; ++i)
    {
        m_traceTangents[i] = Array<OneD, NekDouble> (nTracePts, 0.0);
        m_traceBinormals[i] = Array<OneD, NekDouble> (nTracePts, 0.0);
        h[i] = Array<OneD, NekDouble> (nTracePts, 0.0);
    }

    // Normals

    // nx
    Vmath::Vcopy(nTracePts,
                 &m_traceNormals[0][0], 1,
                 &traceFieldsAdded[0][0], 1);

    // ny
    Vmath::Vcopy(nTracePts,
                 &m_traceNormals[1][0], 1,
                 &traceFieldsAdded[1][0], 1);

    // nz
    Vmath::Vcopy(nTracePts,
                 &m_traceNormals[2][0], 1,
                 &traceFieldsAdded[2][0], 1);


    // Tangents and Binormals
    // h1
    Vmath::Vadd(nTracePts,
                &m_traceNormals[0][0], 1,
                &tmpNorm[0], 1,
                &h[0][0], 1);
    // h2
    Vmath::Vcopy(nTracePts,
                 &m_traceNormals[1][0], 1,
                 &h[1][0], 1);
    // h3
    Vmath::Vcopy(nTracePts,
                 &m_traceNormals[2][0], 1,
                 &h[2][0], 1);

    // Norm of h
    for (i = 0; i < m_spacedim; i++)
    {
        Vmath::Vvtvp (nTracePts, &h[i][0], 1, &h[i][0], 1,
                      &NormH[0],1, &NormH[0],1);
    }

    //b1
    Vmath::Vmul(nTracePts,
                &h[0][0], 1,
                &h[1][0], 1,
                &tmpTrace[0],1);

    Vmath::Vdiv(nTracePts,
                &tmpTrace[0],1,
                &NormH[0], 1,
                &tmpTrace[0],1);

    Vmath::Smul(nTracePts, -2.0,
                &tmpTrace[0], 1,
                &m_traceBinormals[0][0], 1);

    Vmath::Vcopy(nTracePts,
                 &m_traceBinormals[0][0], 1,
                 &traceFieldsAdded[3][0], 1);


    //b2
    Vmath::Vmul(nTracePts,
                &h[1][0], 1,
                &h[1][0], 1,
                &tmpTrace[0],1);

    Vmath::Vdiv(nTracePts,
                &tmpTrace[0],1,
                &NormH[0], 1,
                &tmpTrace[0],1);

    Vmath::Smul(nTracePts, -2.0,
                &tmpTrace[0], 1,
                &tmpTrace[0], 1);

    Vmath::Vadd(nTracePts,
                &tmpTrace[0], 1,
                &tmpNorm[0], 1,
                &m_traceBinormals[1][0], 1);

    Vmath::Vcopy(nTracePts,
                 &m_traceBinormals[1][0], 1,
                 &traceFieldsAdded[4][0], 1);


    //b3
    Vmath::Vmul(nTracePts,
                &h[1][0], 1,
                &h[2][0], 1,
                &tmpTrace[0],1);

    Vmath::Vdiv(nTracePts,
                &tmpTrace[0],1,
                &NormH[0], 1,
                &tmpTrace[0],1);

    Vmath::Smul(nTracePts, -2.0,
                &tmpTrace[0], 1,
                &m_traceBinormals[2][0], 1);

    Vmath::Vcopy(nTracePts,
                 &m_traceBinormals[2][0], 1,
                 &traceFieldsAdded[5][0], 1);


    //t1
    Vmath::Vmul(nTracePts,
                &h[0][0], 1,
                &h[2][0], 1,
                &tmpTrace[0],1);

    Vmath::Vdiv(nTracePts,
                &tmpTrace[0],1,
                &NormH[0], 1,
                &tmpTrace[0],1);

    Vmath::Smul(nTracePts, -2.0,
                &tmpTrace[0], 1,
                &m_traceTangents[0][0], 1);

    Vmath::Vcopy(nTracePts,
                 &m_traceTangents[0][0], 1,
                 &traceFieldsAdded[6][0], 1);

    //t2
    Vmath::Vcopy(nTracePts,
                 &m_traceBinormals[2][0], 1,
                 &m_traceTangents[1][0], 1);

    Vmath::Vcopy(nTracePts,
                 &m_traceTangents[1][0], 1,
                 &traceFieldsAdded[7][0], 1);


    //t3
    Vmath::Vmul(nTracePts,
                &h[2][0], 1,
                &h[2][0], 1,
                &tmpTrace[0],1);

    Vmath::Vdiv(nTracePts,
                &tmpTrace[0],1,
                &NormH[0], 1,
                &tmpTrace[0],1);

    Vmath::Smul(nTracePts, -2.0,
                &tmpTrace[0], 1,
                &tmpTrace[0], 1);

    Vmath::Vadd(nTracePts,
                &tmpTrace[0], 1,
                &tmpNorm[0], 1,
                &m_traceTangents[2][0], 1);

    Vmath::Vcopy(nTracePts,
                 &m_traceTangents[2][0], 1,
                 &traceFieldsAdded[8][0], 1);


    /******** Evaluation of the pressure ***************************************
     * P    = (E-1/2.*rho.*((rhou./rho).^2+(rhov./rho).^2))*(gamma - 1);
     * P -> traceFieldsAdded[9];
     ***************************************************************************/

    Array<OneD, NekDouble> pressure(nSolutionPts, 0.0);
    NekDouble gammaMinusOne    = m_gamma - 1.0;


    for (i = 0; i < m_spacedim; i++)
    {
        Vmath::Vmul(nSolutionPts,
                    &uFields[i + 1][0], 1,
                    &uFields[i + 1][0], 1,
                    &tmp[0],1);


        Vmath::Smul(nSolutionPts, 0.5,
                    &tmp[0], 1,
                    &tmp[0], 1);

        Vmath::Vadd(nSolutionPts,
                    &pressure[0], 1,
                    &tmp[0], 1,
                    &pressure[0], 1);
    }

    Vmath::Vdiv(nSolutionPts,
                &pressure[0], 1,
                &uFields[0][0], 1,
                &pressure[0],1);

    Vmath::Vsub(nSolutionPts,
                &uFields[nfields - 1][0], 1,
                &pressure[0], 1,
                &pressure[0],1);

    Vmath::Smul(nSolutionPts, gammaMinusOne,
                &pressure[0], 1,
                &pressure[0], 1);

    // Extract trace
    pFields[0]->ExtractTracePhys(pressure, traceFieldsAdded[9]);

    /******** Evaluation of the temperature ************************************
     * T = P/(R*rho);
     * T -> traceFieldsAdded[10];
     ***************************************************************************/

    Array<OneD, NekDouble> temperature(nSolutionPts, 0.0);

    Vmath::Vdiv(nSolutionPts,
                &pressure[0], 1,
                &uFields[0][0], 1,
                &temperature[0],1);

    NekDouble GasConstantInv =  1.0/m_gasConstant;
    Vmath::Smul(nSolutionPts, GasConstantInv,
                &temperature[0], 1,
                &temperature[0], 1);

    // Extract trace
    pFields[0]->ExtractTracePhys(temperature, traceFieldsAdded[10]);

    /*** Evaluation of the temperature gradient in the normal direction ********
     * DT_n -> traceFieldsAdded[11]
     ***************************************************************************/

    Array<OneD, Array<OneD, NekDouble> > Dtemperature(nDimensions);
    Array<OneD, Array<OneD, NekDouble> > traceDtemperature(nDimensions);

    for (i = 0; i < nDimensions; ++ i)
    {
        Dtemperature[i]  = Array<OneD, NekDouble>(nSolutionPts, 0.0);
        traceDtemperature[i]  = Array<OneD, NekDouble>(nTracePts, 0.0);
    }

    for (i = 0; i < nDimensions; ++ i)
    {
        for (n = 0; n < nElements; n++)
        {
            phys_offset = pFields[0]->GetPhys_Offset(n);

            pFields[i]->GetExp(n)->PhysDeriv(
                i, temperature + phys_offset,
                auxArray = Dtemperature[i] + phys_offset);
        }
        // Extract trace
        pFields[0]->ExtractTracePhys(Dtemperature[i], traceDtemperature[i]);
    }

    for(i = 0; i < nDimensions; ++i)
    {
        Vmath::Vmul(nTracePts,
                    &m_traceNormals[i][0], 1,
                    &traceDtemperature[i][0], 1,
                    &tmp[0],1);

        Vmath::Vadd(nTracePts,
                    &traceFieldsAdded[11][0], 1,
                    &tmp[0], 1,
                    &traceFieldsAdded[11][0], 1);
    }

    /*** Evaluation of the pressure gradient ***********************************
     * DP_t -> traceFieldsAdded[12]   tangent direction
     * DP_b -> traceFieldsAdded[13]   binormal direction
     * DP_x -> traceFieldsAdded[14]
     * DP_y -> traceFieldsAdded[15]
     * DP_z -> traceFieldsAdded[16]
     ***************************************************************************/

    Array<OneD, Array<OneD, NekDouble> > Dpressure(nDimensions);
    Array<OneD, Array<OneD, NekDouble> > traceDpressure(nDimensions);

    for (i = 0; i < nDimensions; ++ i)
    {
        Dpressure[i]  = Array<OneD, NekDouble>(nSolutionPts, 0.0);
        traceDpressure[i]  = Array<OneD, NekDouble>(nTracePts, 0.0);
    }

    for (i = 0; i < nDimensions; ++ i)
    {
        for (n = 0; n < nElements; n++)
        {
            phys_offset = pFields[0]->GetPhys_Offset(n);

            pFields[i]->GetExp(n)->PhysDeriv(
                i, pressure + phys_offset,
                auxArray = Dpressure[i] + phys_offset);
        }
        // Extract trace
        pFields[0]->ExtractTracePhys(Dpressure[i], traceDpressure[i]);
    }

    // Dp_t
    for(i = 0; i < nDimensions; ++i)
    {
        Vmath::Vmul(nTracePts,
                    &m_traceTangents[i][0], 1,
                    &traceDpressure[i][0], 1,
                    &tmp[0],1);

        Vmath::Vadd(nTracePts,
                    &traceFieldsAdded[12][0], 1,
                    &tmp[0], 1,
                    &traceFieldsAdded[12][0], 1);
    }

    // Dp_b
    for(i = 0; i < nDimensions; ++i)
    {
        Vmath::Vmul(nTracePts,
                    &m_traceBinormals[i][0], 1,
                    &traceDpressure[i][0], 1,
                    &tmp[0],1);

        Vmath::Vadd(nTracePts,
                    &traceFieldsAdded[13][0], 1,
                    &tmp[0], 1,
                    &traceFieldsAdded[13][0], 1);
    }


    // Dp_x
    Vmath::Vcopy(nTracePts,
                 &traceDpressure[0][0], 1,
                 &traceFieldsAdded[14][0], 1);

    // Dp_y
    Vmath::Vcopy(nTracePts,
                 &traceDpressure[1][0], 1,
                 &traceFieldsAdded[15][0], 1);

    // Dp_z
    Vmath::Vcopy(nTracePts,
                 &traceDpressure[2][0], 1,
                 &traceFieldsAdded[16][0], 1);


    /** Evaluation of the velocity gradient in the cartesian directions
     * Du_x:    traceFieldsAdded[17]
     * Du_y:    traceFieldsAdded[18]
     * Du_z:    traceFieldsAdded[19]
     * Dv_x:    traceFieldsAdded[20]
     * Dv_y:    traceFieldsAdded[21]
     * Dv_z:    traceFieldsAdded[22]
     * Dw_x:    traceFieldsAdded[23]
     * Dw_y:    traceFieldsAdded[24]
     * Dw_z:    traceFieldsAdded[25]
     **/

    Array<OneD, Array<OneD, Array<OneD, NekDouble> > > Dvelocity(nDimensions);
    Array<OneD, Array<OneD, Array<OneD, NekDouble> > > traceDvelocity(nDimensions);
    Array<OneD, Array<OneD, NekDouble> > velocity(nDimensions);

    for (i = 0; i < nDimensions; ++ i)
    {
        Dvelocity[i]      = Array<OneD, Array<OneD, NekDouble> >(nDimensions);
        traceDvelocity[i] = Array<OneD, Array<OneD, NekDouble> >(nDimensions);
        velocity[i]       = Array<OneD, NekDouble>(nSolutionPts, 0.0);

        Vmath::Vdiv(nSolutionPts, uFields[i+1], 1, uFields[0], 1,
                    velocity[i], 1);

        for (j = 0; j < nDimensions; ++j)
        {
            Dvelocity[i][j]      = Array<OneD, NekDouble>(nSolutionPts, 0.0);
            traceDvelocity[i][j] = Array<OneD, NekDouble>(nTracePts, 0.0);
        }
    }

    for (i = 0; i < nDimensions; ++i)
    {
        for (j = 0; j < nDimensions; ++j)
        {
            for (n = 0; n < nElements; n++)
            {
                phys_offset = pFields[0]->GetPhys_Offset(n);

                pFields[i]->GetExp(n)->PhysDeriv(
                    j, velocity[i] + phys_offset,
                    auxArray = Dvelocity[i][j] + phys_offset);
            }

            // Extract trace
            pFields[0]->ExtractTracePhys(Dvelocity[i][j], traceDvelocity[i][j]);
        }
    }

    Vmath::Vcopy(nTracePts,
                 &traceDvelocity[0][0][0], 1,
                 &traceFieldsAdded[17][0], 1);
    Vmath::Vcopy(nTracePts,
                 &traceDvelocity[0][1][0], 1,
                 &traceFieldsAdded[18][0], 1);
    Vmath::Vcopy(nTracePts,
                 &traceDvelocity[0][2][0], 1,
                 &traceFieldsAdded[19][0], 1);
    Vmath::Vcopy(nTracePts,
                 &traceDvelocity[1][0][0], 1,
                 &traceFieldsAdded[20][0], 1);
    Vmath::Vcopy(nTracePts,
                 &traceDvelocity[1][1][0], 1,
                 &traceFieldsAdded[21][0], 1);
    Vmath::Vcopy(nTracePts,
                 &traceDvelocity[1][2][0], 1,
                 &traceFieldsAdded[22][0], 1);
    Vmath::Vcopy(nTracePts,
                 &traceDvelocity[2][0][0], 1,
                 &traceFieldsAdded[23][0], 1);
    Vmath::Vcopy(nTracePts,
                 &traceDvelocity[2][1][0], 1,
                 &traceFieldsAdded[24][0], 1);
    Vmath::Vcopy(nTracePts,
                 &traceDvelocity[2][2][0], 1,
                 &traceFieldsAdded[25][0], 1);


    /*** Evaluation of shear stresses ******************************************
     * tau_xx -> traceFieldsAdded[26]
     * tau_yy -> traceFieldsAdded[27]
     * tau_zz -> traceFieldsAdded[28]
     * tau_xy -> traceFieldsAdded[29]
     * tau_xz -> traceFieldsAdded[30]
     * tau_yz -> traceFieldsAdded[31]
     ***************************************************************************/

    // Stokes hypotesis
    const NekDouble lambda = -2.0/3.0;

    // Auxiliary variables
    Array<OneD, NekDouble > mu    (nSolutionPts, 0.0);
    Array<OneD, NekDouble > mu2   (nSolutionPts, 0.0);
    Array<OneD, NekDouble > divVel(nSolutionPts, 0.0);

    // Variable viscosity through the Sutherland's law
    if (m_ViscosityType == "Variable")
    {
        NekDouble mu_star = m_mu;
        NekDouble T_star  = m_pInf / (m_rhoInf * m_gasConstant);
        NekDouble ratio;

        for (int i = 0; i < nSolutionPts; ++i)
        {
            ratio = temperature[i] / T_star;
            mu[i] = mu_star * ratio * sqrt(ratio) *
                (T_star + 110.0) / (temperature[i] + 110.0);
        }
    }
    else
    {
        Vmath::Fill(nSolutionPts, m_mu, &mu[0], 1);
    }

    // Computing diagonal terms of viscous stress tensor
    Array<OneD, Array<OneD, NekDouble> > temp(m_spacedim);
    Array<OneD, Array<OneD, NekDouble> > Sgg(m_spacedim);

    // mu2 = 2 * mu
    Vmath::Smul(nSolutionPts, 2.0, &mu[0], 1, &mu2[0], 1);

    // Velocity divergence
    Vmath::Vadd(nSolutionPts, &divVel[0], 1,
                &Dvelocity[0][0][0], 1, &divVel[0], 1);
    Vmath::Vadd(nSolutionPts, &divVel[0], 1,
                &Dvelocity[1][1][0], 1, &divVel[0], 1);

    // Velocity divergence scaled by lambda * mu
    Vmath::Smul(nSolutionPts, lambda, &divVel[0], 1, &divVel[0], 1);
    Vmath::Vmul(nSolutionPts, &mu[0], 1, &divVel[0], 1, &divVel[0], 1);

    // Diagonal terms of viscous stress tensor (Sxx, Syy)
    // Sjj = 2 * mu * du_j/dx_j - (2 / 3) * mu * sum_j(du_j/dx_j)
    for (j = 0; j < m_spacedim; ++j)
    {
        temp[j] = Array<OneD, NekDouble>(nSolutionPts, 0.0);
        Sgg[j] = Array<OneD, NekDouble>(nSolutionPts, 0.0);

        Vmath::Vmul(nSolutionPts, &mu2[0], 1, &Dvelocity[j][j][0], 1,
                    &temp[j][0], 1);

        Vmath::Vadd(nSolutionPts, &temp[j][0], 1, &divVel[0], 1, &Sgg[j][0], 1);
    }

    // Extra diagonal terms of viscous stress tensor
    Array<OneD, NekDouble > Sxy(nSolutionPts, 0.0);
    Array<OneD, NekDouble > Sxz(nSolutionPts, 0.0);
    Array<OneD, NekDouble > Syz(nSolutionPts, 0.0);

    // Sxy = (du/dy + dv/dx)
    Vmath::Vadd(nSolutionPts, &Dvelocity[0][1][0], 1,
                &Dvelocity[1][0][0], 1, &Sxy[0], 1);

    // Sxz = (du/dz + dw/dx)
    Vmath::Vadd(nSolutionPts, &Dvelocity[0][2][0], 1,
                &Dvelocity[2][0][0], 1, &Sxz[0], 1);

    // Syz = (dv/dz + dw/dy)
    Vmath::Vadd(nSolutionPts, &Dvelocity[1][2][0], 1,
                &Dvelocity[2][1][0], 1, &Syz[0], 1);

    // Sxy = mu * (du/dy + dv/dx)
    Vmath::Vmul(nSolutionPts, &mu[0], 1, &Sxy[0], 1, &Sxy[0], 1);

    // Sxz = mu * (du/dy + dv/dx)
    Vmath::Vmul(nSolutionPts, &mu[0], 1, &Sxz[0], 1, &Sxz[0], 1);

    // Syz = mu * (du/dy + dv/dx)
    Vmath::Vmul(nSolutionPts, &mu[0], 1, &Syz[0], 1, &Syz[0], 1);



    pFields[0]->ExtractTracePhys(Sgg[0], traceFieldsAdded[26]);
    pFields[0]->ExtractTracePhys(Sgg[1], traceFieldsAdded[27]);
    pFields[0]->ExtractTracePhys(Sgg[2], traceFieldsAdded[28]);
    pFields[0]->ExtractTracePhys(Sxy, traceFieldsAdded[29]);
    pFields[0]->ExtractTracePhys(Sxz, traceFieldsAdded[30]);
    pFields[0]->ExtractTracePhys(Syz, traceFieldsAdded[31]);

    /*** Evaluation of dinamic viscosity ***************************************
     * mu -> traceFieldsAdded[32]
     ***************************************************************************/

    pFields[0]->ExtractTracePhys(mu, traceFieldsAdded[32]);

    /*** Evaluation of Mach number *********************************************
     * M -> traceFieldsAdded[33]
     ***************************************************************************/
    NekDouble gamma    = m_gamma;

    // Speed of sound
    Array<OneD, NekDouble> soundspeed(nSolutionPts, 0.0);

    Vmath::Vdiv (nSolutionPts, pressure, 1, uFields[0], 1, soundspeed, 1);
    Vmath::Smul (nSolutionPts, gamma, soundspeed, 1, soundspeed, 1);
    Vmath::Vsqrt(nSolutionPts, soundspeed, 1, soundspeed, 1);

    // Mach
    Array<OneD, NekDouble> mach(nSolutionPts, 0.0);

    for (int i = 0; i < m_spacedim; ++i)
    {
        Vmath::Vvtvp(nSolutionPts,
                     uFields[i + 1], 1,
                     uFields[i + 1], 1,
                     mach, 1, mach, 1);
    }

    Vmath::Vdiv(nSolutionPts,  mach, 1, uFields[0], 1, mach, 1);
    Vmath::Vdiv(nSolutionPts,  mach, 1, uFields[0], 1, mach, 1);
    Vmath::Vsqrt(nSolutionPts, mach, 1, mach, 1);
    Vmath::Vdiv(nSolutionPts,  mach, 1, soundspeed, 1, mach, 1);

    pFields[0]->ExtractTracePhys(mach, traceFieldsAdded[33]);



    /**************************************************************************/
    // Extract coordinates

    if (pFields[0]->GetBndCondExpansions().num_elements())
    {
        id1 = 0;
        cnt = 0;
        nBndRegions = pFields[0]->GetBndCondExpansions().num_elements();
        for (b = 0; b < nBndRegions; ++b)
        {
            nBndEdges = pFields[0]->GetBndCondExpansions()[b]->GetExpSize();
            for (e = 0; e < nBndEdges; ++e)
            {
                nBndEdgePts = pFields[0]->
                    GetBndCondExpansions()[b]->GetExp(e)->GetTotPoints();

                id2 = pFields[0]->GetTrace()->
                    GetPhys_Offset(pFields[0]->GetTraceMap()->
                                   GetBndCondTraceToGlobalTraceMap(cnt++));

                if (pFields[0]->GetBndConditions()[b]->
                        GetUserDefined() == "WallViscous" ||
                    pFields[0]->GetBndConditions()[b]->
                        GetUserDefined() == "WallAdiabatic" ||
                    pFields[0]->GetBndConditions()[b]->
                        GetUserDefined() == "Wall")
                {

                    Vmath::Vcopy(nBndEdgePts, &traceX[id2], 1,
                                 &surfaceX[id1], 1);

                    Vmath::Vcopy(nBndEdgePts, &traceY[id2], 1,
                                 &surfaceY[id1], 1);

                    Vmath::Vcopy(nBndEdgePts, &traceZ[id2], 1,
                                 &surfaceZ[id1], 1);

                    id1 += nBndEdgePts;
                }
            }
        }
    }

    // Extract fields
    if (pFields[0]->GetBndCondExpansions().num_elements())
    {

        for (j = 0; j < nfields; ++j)
        {
            cout << "field " << j << endl;

            id1 = 0;
            cnt = 0;
            nBndRegions = pFields[j]->GetBndCondExpansions().num_elements();
            for (b = 0; b < nBndRegions; ++b)
            {
                nBndEdges = pFields[j]->GetBndCondExpansions()[b]->GetExpSize();
                for (e = 0; e < nBndEdges; ++e)
                {
                    nBndEdgePts = pFields[j]->
                        GetBndCondExpansions()[b]->GetExp(e)->GetTotPoints();

                    id2 = pFields[j]->GetTrace()->
                        GetPhys_Offset(pFields[j]->GetTraceMap()->
                                       GetBndCondTraceToGlobalTraceMap(cnt++));

                    if (pFields[j]->GetBndConditions()[b]->
                            GetUserDefined() == "WallViscous" ||
                        pFields[j]->GetBndConditions()[b]->
                            GetUserDefined() == "WallAdiabatic" ||
                        pFields[j]->GetBndConditions()[b]->
                            GetUserDefined() == "Wall")
                    {
                        Vmath::Vcopy(nBndEdgePts, &traceFields[j][id2], 1,
                                     &surfaceFields[j][id1], 1);

                        id1 += nBndEdgePts;
                    }
                }
            }
        }
    }

    // Extract fields added
    if (pFields[0]->GetBndCondExpansions().num_elements())
    {
        for (j = 0; j < nfieldsAdded; ++j)
        {
            cout << "field added " << j << endl;

            id1 = 0;
            cnt = 0;
            nBndRegions = pFields[0]->GetBndCondExpansions().num_elements();
            for (b = 0; b < nBndRegions; ++b)
            {
                nBndEdges = pFields[0]->GetBndCondExpansions()[b]->GetExpSize();
                for (e = 0; e < nBndEdges; ++e)
                {
                    nBndEdgePts = pFields[0]->
                        GetBndCondExpansions()[b]->GetExp(e)->GetTotPoints();

                    id2 = pFields[0]->GetTrace()->
                        GetPhys_Offset(pFields[0]->GetTraceMap()->
                                       GetBndCondTraceToGlobalTraceMap(cnt++));

                    if (pFields[0]->GetBndConditions()[b]->
                            GetUserDefined() == "WallViscous" ||
                        pFields[0]->GetBndConditions()[b]->
                            GetUserDefined() == "WallAdiabatic" ||
                        pFields[0]->GetBndConditions()[b]->
                            GetUserDefined() == "Wall")
                    {
                        Vmath::Vcopy(nBndEdgePts, &traceFieldsAdded[j][id2], 1,
                                     &surfaceFieldsAdded[j][id1], 1);

                        id1 += nBndEdgePts;
                    }
                }
            }
        }
    }

    //==========================================================================
    //==========================================================================
    //==========================================================================

    // Print the surface coordinates and the surface solution in a .txt file
    ofstream outfile;
    outfile.open(fname.c_str());
    outfile <<  "%  x[m] " << " \t"
            << "y[m] " << " \t"
            << "z[m] " << " \t"
            << "nx[]  " << " \t"
            << "ny[]  " << " \t"
            << "nz[]  " << " \t"
            << "bx[]  " << " \t"
            << "by[]  " << " \t"
            << "bz[]  " << " \t"
            << "tx[]  " << " \t"
            << "ty[]  " << " \t"
            << "tz[]  " << " \t"
            << "rho[kg/m^3] " << " \t"
            << "rhou[kg/(m^2 s)] " << " \t"
            << "rhov[kg/(m^2 s)] " << " \t"
            << "rhow[kg/(m^2 s)] " << " \t"
            << "E[Pa] " << " \t"
            << "p[Pa] " << " \t"
            << "T[k]  " << " \t"
            << "dT/dn[k/m]  "  << " \t"
            << "dp/dT[Pa/m]  " << " \t"
            << "dp/dB[Pa/m]  " << " \t"
            << "dp/dx[Pa/m]  " << " \t"
            << "dp/dy[Pa/m]  " << " \t"
            << "dp/dz[Pa/m]  " << " \t"
            << "du/dx[s^-1]  " << " \t"
            << "du/dy[s^-1]  " << " \t"
            << "du/dz[s^-1]  " << " \t"
            << "dv/dx[s^-1]  " << " \t"
            << "dv/dy[s^-1]  " << " \t"
            << "dv/dz[s^-1]  " << " \t"
            << "dw/dx[s^-1]  " << " \t"
            << "dw/dy[s^-1]  " << " \t"
            << "dw/dz[s^-1]  " << " \t"
            << "tau_xx[Pa]   " << " \t"
            << "tau_yy[Pa]   " << " \t"
            << "tau_zz[Pa]   " << " \t"
            << "tau_xy[Pa]   " << " \t"
            << "tau_xz[Pa]   " << " \t"
            << "tau_yz[Pa]   " << " \t"
            << "mu[Pa s]     " << " \t"
            << "M[] " << " \t"
            << endl;
    for (i = 0; i < nSurfacePts; ++i)
    {
        outfile << scientific
                << setw (17)
                << setprecision(16)
                << surfaceX[i] << " \t "
                << surfaceY[i] << " \t "
                << surfaceZ[i] << " \t "
                << surfaceFieldsAdded[0][i] << " \t "
                << surfaceFieldsAdded[1][i] << " \t "
                << surfaceFieldsAdded[2][i] << " \t "
                << surfaceFieldsAdded[3][i] << " \t "
                << surfaceFieldsAdded[4][i] << " \t "
                << surfaceFieldsAdded[5][i] << " \t "
                << surfaceFieldsAdded[6][i] << " \t "
                << surfaceFieldsAdded[7][i] << " \t "
                << surfaceFieldsAdded[8][i] << " \t "
                << surfaceFields[0][i] << " \t "
                << surfaceFields[1][i] << " \t "
                << surfaceFields[2][i] << " \t "
                << surfaceFields[3][i] << " \t "
                << surfaceFields[4][i] << " \t "
                << surfaceFieldsAdded[9][i] << " \t "
                << surfaceFieldsAdded[10][i] << " \t "
                << surfaceFieldsAdded[11][i] << " \t "
                << surfaceFieldsAdded[12][i] << " \t "
                << surfaceFieldsAdded[13][i] << " \t "
                << surfaceFieldsAdded[14][i] << " \t "
                << surfaceFieldsAdded[15][i] << " \t "
                << surfaceFieldsAdded[16][i] << " \t "
                << surfaceFieldsAdded[17][i] << " \t "
                << surfaceFieldsAdded[18][i] << " \t "
                << surfaceFieldsAdded[19][i] << " \t "
                << surfaceFieldsAdded[20][i] << " \t "
                << surfaceFieldsAdded[21][i] << " \t "
                << surfaceFieldsAdded[22][i] << " \t "
                << surfaceFieldsAdded[23][i] << " \t "
                << surfaceFieldsAdded[24][i] << " \t "
                << surfaceFieldsAdded[25][i] << " \t "
                << surfaceFieldsAdded[26][i] << " \t "
                << surfaceFieldsAdded[27][i] << " \t "
                << surfaceFieldsAdded[28][i] << " \t "
                << surfaceFieldsAdded[29][i] << " \t "
                << surfaceFieldsAdded[30][i] << " \t "
                << surfaceFieldsAdded[31][i] << " \t "
                << surfaceFieldsAdded[32][i] << " \t "
                << surfaceFieldsAdded[33][i] << " \t "
                << endl;
    }
    outfile << endl << endl;
    outfile.close();

    return 0;
}
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;
}
示例#5
0
int main(int argc, char *argv[])
{
    Array<OneD,NekDouble>  fce;
    Array<OneD,NekDouble>  xc0,xc1,xc2;

    if(argc < 2)
    {
        fprintf(stderr,"Usage: XmlToTecplot meshfile\n");
        exit(1);
    }

    LibUtilities::SessionReader::RegisterCmdLineFlag(
        "multi-zone", "m", "Output multi-zone format (one element per zone).");

    LibUtilities::SessionReaderSharedPtr vSession
            = LibUtilities::SessionReader::CreateInstance(argc, argv);

    //----------------------------------------------
    // Read in mesh from input file
    string meshfile(argv[argc-1]);
    SpatialDomains::MeshGraphSharedPtr graphShPt
        = SpatialDomains::MeshGraph::Read(vSession);
    //----------------------------------------------

    //----------------------------------------------
    // Set up Expansion information
    SpatialDomains::ExpansionMap emap = graphShPt->GetExpansions();
    SpatialDomains::ExpansionMapIter it;

    for (it = emap.begin(); it != emap.end(); ++it)
    {
        for (int i = 0; i < it->second->m_basisKeyVector.size(); ++i)
        {
            LibUtilities::BasisKey  tmp1 = it->second->m_basisKeyVector[i];
            LibUtilities::PointsKey tmp2 = tmp1.GetPointsKey();
            it->second->m_basisKeyVector[i] = LibUtilities::BasisKey(
                tmp1.GetBasisType(), tmp1.GetNumModes(),
                LibUtilities::PointsKey(tmp1.GetNumModes(),
                                        LibUtilities::ePolyEvenlySpaced));
        }
    }
    //----------------------------------------------

    //----------------------------------------------
    // Define Expansion
    int expdim  = graphShPt->GetMeshDimension();
    Array<OneD, MultiRegions::ExpListSharedPtr> Exp(1);

    switch(expdim)
    {
        case 1:
        {
            MultiRegions::ExpList1DSharedPtr Exp1D;
            Exp1D = MemoryManager<MultiRegions::ExpList1D>::AllocateSharedPtr(vSession,graphShPt);
            Exp[0] = Exp1D;
            break;
        }
        case 2:
        {
            if(vSession->DefinesSolverInfo("HOMOGENEOUS"))
            {
                std::string HomoStr = vSession->GetSolverInfo("HOMOGENEOUS");
                MultiRegions::ExpList3DHomogeneous1DSharedPtr Exp3DH1;

                ASSERTL0(
                    HomoStr == "HOMOGENEOUS1D" || HomoStr == "Homogeneous1D" ||
                    HomoStr == "1D"            || HomoStr == "Homo1D",
                    "Only 3DH1D supported for XML output currently.");

                int nplanes;
                vSession->LoadParameter("HomModesZ", nplanes);

                // choose points to be at evenly spaced points at nplanes + 1
                // points
                const LibUtilities::PointsKey Pkey(
                    nplanes + 1, LibUtilities::ePolyEvenlySpaced);
                const LibUtilities::BasisKey  Bkey(
                    LibUtilities::eFourier, nplanes, Pkey);
                NekDouble lz = vSession->GetParameter("LZ");

                Exp3DH1 = MemoryManager<MultiRegions::ExpList3DHomogeneous1D>
                    ::AllocateSharedPtr(
                        vSession, Bkey, lz, false, false, graphShPt);
                Exp[0] = Exp3DH1;
            }
            else
            {
                MultiRegions::ExpList2DSharedPtr Exp2D;
                Exp2D = MemoryManager<MultiRegions::ExpList2D>::AllocateSharedPtr(vSession,graphShPt);
                Exp[0] =  Exp2D;
            }
            break;
        }
        case 3:
        {
            MultiRegions::ExpList3DSharedPtr Exp3D;
            Exp3D = MemoryManager<MultiRegions::ExpList3D>::AllocateSharedPtr(vSession,graphShPt);
            Exp[0] =  Exp3D;
            break;
        }
        default:
            ASSERTL0(false,"Expansion dimension not recognised");
            break;
    }

    //-----------------------------------------------

    //----------------------------------------------
    // Write solution  depending on #define
    string   outfile(strtok(argv[argc-1],"."));
    outfile +=  ".dat";
    ofstream outstrm(outfile.c_str());

    Exp[0]->WriteTecplotHeader(outstrm);

    if (vSession->DefinesCmdLineArgument("multi-zone"))
    {
        int nExp = Exp[0]->GetExpSize();

        for (int i = 0; i < nExp; ++i)
        {
            Exp[0]->WriteTecplotZone        (outstrm, i);
            Exp[0]->WriteTecplotConnectivity(outstrm, i);
        }
    }
    else
    {
        Exp[0]->WriteTecplotZone        (outstrm);
        Exp[0]->WriteTecplotConnectivity(outstrm);
    }

    outstrm.close();
    //----------------------------------------------
    return 0;
}
示例#6
0
文件: FldToPts.cpp 项目: gaoak/nektar
int main(int argc, char *argv[])
{
    unsigned int i,j;

    if(argc < 3)
    {
        fprintf(stderr,"Usage: FldToPts  meshfile  fieldfile(s)\n");
        exit(1);
    }


    int nExtraPoints;
    LibUtilities::SessionReaderSharedPtr vSession
            = LibUtilities::SessionReader::CreateInstance(argc, argv);

    vSession->LoadParameter("OutputExtraPoints",nExtraPoints,0);

    //----------------------------------------------
    // Read in mesh from input file
    SpatialDomains::MeshGraphSharedPtr graphShPt = SpatialDomains::MeshGraph::Read(vSession);//->GetFilename(), false);
    //----------------------------------------------

    for (int n = 2; n < argc; ++n)
    {
        string fname = std::string(argv[n]);
        int fdot = fname.find_last_of('.');
        if (fdot != std::string::npos)
        {
            string ending = fname.substr(fdot);
            if (ending == ".chk" || ending == ".fld")
            {
                fname = fname.substr(0,fdot);
            }
        }
        fname = fname + ".pts";

        if (argc > 3)
        {
            if (fexist(fname.c_str()))
            {
                cout << "Skipping converted file: " << argv[n] << endl;
                continue;
            }
            cout << "Processing " << argv[n] << endl;
        }

        //----------------------------------------------
        // Import field file.
        string fieldfile(argv[n]);
        vector<SpatialDomains::FieldDefinitionsSharedPtr> fielddef;
        vector<vector<NekDouble> > fielddata;
        graphShPt->Import(fieldfile,fielddef,fielddata);
        bool useFFT = false;
		bool dealiasing = false;
        //----------------------------------------------

        //----------------------------------------------
        // Set up Expansion information
        for(i = 0; i < fielddef.size(); ++i)
        {
            vector<LibUtilities::PointsType> ptype;
            for(j = 0; j < 3; ++j)
            {
                ptype.push_back(LibUtilities::ePolyEvenlySpaced);
            }
            
            fielddef[i]->m_pointsDef = true;
            fielddef[i]->m_points    = ptype; 
            
            vector<unsigned int> porder;
            if(fielddef[i]->m_numPointsDef == false)
            {
                for(j = 0; j < fielddef[i]->m_numModes.size(); ++j)
                {
                    porder.push_back(fielddef[i]->m_numModes[j]+nExtraPoints);
                }
                
                fielddef[i]->m_numPointsDef = true;
            }
            else
            {
                for(j = 0; j < fielddef[i]->m_numPoints.size(); ++j)
                {
                    porder.push_back(fielddef[i]->m_numPoints[j]+nExtraPoints);
                }
            }
            fielddef[i]->m_numPoints = porder;
            
        }
        graphShPt->SetExpansions(fielddef);
        //----------------------------------------------


        //----------------------------------------------
        // Define Expansion
        int expdim  = graphShPt->GetMeshDimension();
        int nfields = fielddef[0]->m_fields.size();
        Array<OneD, MultiRegions::ExpListSharedPtr> Exp(nfields);

        switch(expdim)
        {
        case 1:
            {
                ASSERTL0(fielddef[0]->m_numHomogeneousDir <= 2,"NumHomogeneousDir is only set up for 1 or 2");

                if(fielddef[0]->m_numHomogeneousDir == 1)
                {
                    MultiRegions::ExpList2DHomogeneous1DSharedPtr Exp2DH1;

                    // Define Homogeneous expansion
                    //int nplanes = fielddef[0]->m_numModes[1];
					int nplanes; 
					vSession->LoadParameter("HomModesZ",nplanes,fielddef[0]->m_numModes[1]);

                    // choose points to be at evenly spaced points at
                    const LibUtilities::PointsKey Pkey(nplanes+1,LibUtilities::ePolyEvenlySpaced);
                    const LibUtilities::BasisKey  Bkey(fielddef[0]->m_basis[1],nplanes,Pkey);
                    NekDouble ly = fielddef[0]->m_homogeneousLengths[0];

                    Exp2DH1 = MemoryManager<MultiRegions::ExpList2DHomogeneous1D>::AllocateSharedPtr(vSession,Bkey,ly,useFFT,dealiasing,graphShPt);

                    for(i = 1; i < nfields; ++i)
                    {
                        Exp[i] = MemoryManager<MultiRegions::ExpList2DHomogeneous1D>::AllocateSharedPtr(*Exp2DH1);
                    }
                }
				else if(fielddef[0]->m_numHomogeneousDir == 2)
				{
					MultiRegions::ExpList3DHomogeneous2DSharedPtr Exp3DH2;
					
					// Define Homogeneous expansion
					//int nylines = fielddef[0]->m_numModes[1];
					//int nzlines = fielddef[0]->m_numModes[2];
					
					int nylines;
					int nzlines;
					vSession->LoadParameter("HomModesY",nylines,fielddef[0]->m_numModes[1]);
					vSession->LoadParameter("HomModesZ",nzlines,fielddef[0]->m_numModes[2]);
					
					
					// choose points to be at evenly spaced points at
					const LibUtilities::PointsKey PkeyY(nylines+1,LibUtilities::ePolyEvenlySpaced);
					const LibUtilities::BasisKey  BkeyY(fielddef[0]->m_basis[1],nylines,PkeyY);
					
					const LibUtilities::PointsKey PkeyZ(nzlines+1,LibUtilities::ePolyEvenlySpaced);
					const LibUtilities::BasisKey  BkeyZ(fielddef[0]->m_basis[2],nzlines,PkeyZ);
					
					NekDouble ly = fielddef[0]->m_homogeneousLengths[0];
					NekDouble lz = fielddef[0]->m_homogeneousLengths[1];
					
					Exp3DH2 = MemoryManager<MultiRegions::ExpList3DHomogeneous2D>::AllocateSharedPtr(vSession,BkeyY,BkeyZ,ly,lz,useFFT,dealiasing,graphShPt);
					Exp[0] = Exp3DH2;
					
					for(i = 1; i < nfields; ++i)
					{
						Exp[i] = MemoryManager<MultiRegions::ExpList3DHomogeneous2D>::AllocateSharedPtr(*Exp3DH2);
					}
				}
                else
                {
                    MultiRegions::ExpList1DSharedPtr Exp1D;
                    Exp1D = MemoryManager<MultiRegions::ExpList1D>
                                                    ::AllocateSharedPtr(vSession,graphShPt);
                    Exp[0] = Exp1D;
                    for(i = 1; i < nfields; ++i)
                    {
                        Exp[i] = MemoryManager<MultiRegions::ExpList1D>
                                                        ::AllocateSharedPtr(*Exp1D);
                    }
                }
            }
            break;
        case 2:
            {
                ASSERTL0(fielddef[0]->m_numHomogeneousDir <= 1,"NumHomogeneousDir is only set up for 1");

                if(fielddef[0]->m_numHomogeneousDir == 1)
                {
                    MultiRegions::ExpList3DHomogeneous1DSharedPtr Exp3DH1;

                    // Define Homogeneous expansion
                    //int nplanes = fielddef[0]->m_numModes[2];
					
					int nplanes; 
					vSession->LoadParameter("HomModesZ",nplanes,fielddef[0]->m_numModes[2]);

                    // choose points to be at evenly spaced points at
                    // nplanes + 1 points
                    const LibUtilities::PointsKey Pkey(nplanes+1,LibUtilities::ePolyEvenlySpaced);
                    const LibUtilities::BasisKey  Bkey(fielddef[0]->m_basis[2],nplanes,Pkey);
                    NekDouble lz = fielddef[0]->m_homogeneousLengths[0];

                    Exp3DH1 = MemoryManager<MultiRegions::ExpList3DHomogeneous1D>::AllocateSharedPtr(vSession,Bkey,lz,useFFT,dealiasing,graphShPt);
                    Exp[0] = Exp3DH1;

                    for(i = 1; i < nfields; ++i)
                    {
                        Exp[i] = MemoryManager<MultiRegions::ExpList3DHomogeneous1D>::AllocateSharedPtr(*Exp3DH1);
                    }
                }
                else
                {
                    MultiRegions::ExpList2DSharedPtr Exp2D;
                    Exp2D = MemoryManager<MultiRegions::ExpList2D>
                                                            ::AllocateSharedPtr(vSession,graphShPt);
                    Exp[0] =  Exp2D;

                    for(i = 1; i < nfields; ++i)
                    {
                        Exp[i] = MemoryManager<MultiRegions::ExpList2D>
                                                            ::AllocateSharedPtr(*Exp2D);
                    }
                }
            }
            break;
        case 3:
            {
                MultiRegions::ExpList3DSharedPtr Exp3D;
                Exp3D = MemoryManager<MultiRegions::ExpList3D>
                                                        ::AllocateSharedPtr(vSession,graphShPt);
                Exp[0] =  Exp3D;

                for(i = 1; i < nfields; ++i)
                {
                    Exp[i] = MemoryManager<MultiRegions::ExpList3D>
                                                        ::AllocateSharedPtr(*Exp3D);
                }
            }
            break;
        default:
            ASSERTL0(false,"Expansion dimension not recognised");
            break;
        }
        //----------------------------------------------

        //----------------------------------------------
        // Copy data from field file
        for(j = 0; j < nfields; ++j)
        {
            for(int i = 0; i < fielddata.size(); ++i)
            {
                Exp[j]->ExtractDataToCoeffs(fielddef [i],
                                            fielddata[i],
                                            fielddef [i]->m_fields[j],
                                            Exp[j]->UpdateCoeffs());
            }
            Exp[j]->BwdTrans(Exp[j]->GetCoeffs(),Exp[j]->UpdatePhys());
        }
        //----------------------------------------------

        //----------------------------------------------
        // Write solution
        //string   outname(strtok(argv[n],"."));
        //outname += ".vtu";
        ofstream outfile(fname.c_str());

        // For each field write out field data for each expansion.
        outfile  <<  "Fields: x y ";
        for(i = 0; i < Exp.num_elements(); ++i)
        {
            outfile << fielddef[0]->m_fields[i]; 
        }
        outfile << endl;
        
        Array<OneD,NekDouble> x(Exp[0]->GetNpoints());
        Array<OneD,NekDouble> y(Exp[0]->GetNpoints());
        Exp[0]->GetCoords(x,y);

        for(i = 0; i < Exp[0]->GetNpoints(); ++i)
        {
            
            outfile << x[i] << "  " << y[i] << "  ";

            for(j = 0; j < Exp.num_elements(); ++j)
            {
                outfile << (Exp[j]->GetPhys())[i] << "  "; 
            }
            outfile << endl;
        }
        cout << "Written file: " << fname << endl;
        //----------------------------------------------
    }
    return 0;
}
示例#7
0
int main(int argc, char *argv[])
{
    int i;
    NekDouble cr = 0;
    
    if(argc !=3)
    {
        fprintf(stderr,"Usage: ./ExtractCriticalLayer  meshfile fieldfile  \n");
        exit(1);
    }
    
    //------------------------------------------------------------
    // Create Session file. 
    LibUtilities::SessionReaderSharedPtr vSession
        = LibUtilities::SessionReader::CreateInstance(argc, argv);
    //-----------------------------------------------------------
    
    //-------------------------------------------------------------
    // Read in mesh from input file
    SpatialDomains::MeshGraphSharedPtr graphShPt = SpatialDomains::MeshGraph::Read(vSession);
    //------------------------------------------------------------
    
    //-------------------------------------------------------------
    // Define Streak Expansion   
    MultiRegions::ExpListSharedPtr streak;   

    streak = MemoryManager<MultiRegions::ExpList2D>
        ::AllocateSharedPtr(vSession,graphShPt);
    //---------------------------------------------------------------

    //----------------------------------------------
    // Import field file.
    string fieldfile(argv[argc-1]);
    vector<LibUtilities::FieldDefinitionsSharedPtr> fielddef;
    vector<vector<NekDouble> > fielddata;
    LibUtilities::Import(fieldfile,fielddef,fielddata);
    //----------------------------------------------

    //----------------------------------------------
    // Copy data from field file
    string  streak_field("w");
    for(unsigned int i = 0; i < fielddata.size(); ++i)
    {
        streak->ExtractDataToCoeffs(fielddef [i],
                                    fielddata[i],
                                    streak_field,
                                    streak->UpdateCoeffs());
    }
    //----------------------------------------------
    
    int npts;
    vSession->LoadParameter("NumCriticalLayerPts",npts,30);
    Array<OneD, NekDouble> x_c(npts);
    Array<OneD, NekDouble> y_c(npts);       
    
    NekDouble trans;
    vSession->LoadParameter("WidthOfLayers",trans,0.1);

    Computestreakpositions(streak,x_c, y_c,cr,trans);    

    cout << "# x_c y_c" << endl;
    for(i = 0; i < npts; ++i)
    {
        fprintf(stdout,"%12.10lf %12.10lf \n",x_c[i],y_c[i]);
        //cout << x_c[i] << " " << y_c[i] << endl;
    }
    
}
示例#8
0
int main(int argc, char *argv[])
{
    int i,j;

    if(argc != 4)
    {
        fprintf(stderr,"Usage: FldAddVort  meshfile infld outfld\n");
        exit(1);
    }

    LibUtilities::SessionReaderSharedPtr vSession
            = LibUtilities::SessionReader::CreateInstance(argc, argv);


    //----------------------------------------------
    // Read in mesh from input file
    string meshfile(argv[argc-3]);
    SpatialDomains::MeshGraphSharedPtr graphShPt = SpatialDomains::MeshGraph::Read(vSession);//meshfile);
    //----------------------------------------------

    //----------------------------------------------
    // Import field file.
    string fieldfile(argv[argc-2]);
    vector<LibUtilities::FieldDefinitionsSharedPtr> fielddef;
    vector<vector<NekDouble> > fielddata;
    LibUtilities::Import(fieldfile,fielddef,fielddata);
    bool useFFT = false;
    bool dealiasing = false;
    //----------------------------------------------

    //----------------------------------------------
    // Define Expansion
    int expdim  = graphShPt->GetMeshDimension();
    int nfields = fielddef[0]->m_fields.size();
    int addfields = (nfields == 4)? 3:1;
    Array<OneD, MultiRegions::ExpListSharedPtr> Exp(nfields + addfields);

    switch(expdim)
    {
    case 1:
        {
            ASSERTL0(fielddef[0]->m_numHomogeneousDir <= 2,"Quasi-3D approach is only set up for 1 or 2 homogeneous directions");

            if(fielddef[0]->m_numHomogeneousDir == 1)
            {
                MultiRegions::ExpList2DHomogeneous1DSharedPtr Exp2DH1;

                // Define Homogeneous expansion
                //int nplanes = fielddef[0]->m_numModes[1];
                int nplanes;
                vSession->LoadParameter("HomModesZ",nplanes,fielddef[0]->m_numModes[1]);

                // choose points to be at evenly spaced points at
                // nplanes points
                const LibUtilities::PointsKey Pkey(nplanes,LibUtilities::ePolyEvenlySpaced);
                const LibUtilities::BasisKey  Bkey(fielddef[0]->m_basis[1],nplanes,Pkey);
                NekDouble ly = fielddef[0]->m_homogeneousLengths[0];

                Exp2DH1 = MemoryManager<MultiRegions::ExpList2DHomogeneous1D>::AllocateSharedPtr(vSession,Bkey,ly,useFFT,dealiasing,graphShPt);
                Exp[0] = Exp2DH1;

                for(i = 1; i < nfields; ++i)
                {
                    Exp[i] = MemoryManager<MultiRegions::ExpList2DHomogeneous1D>::AllocateSharedPtr(*Exp2DH1);
                }
            }
            else if(fielddef[0]->m_numHomogeneousDir == 2)
            {
                MultiRegions::ExpList3DHomogeneous2DSharedPtr Exp3DH2;

                // Define Homogeneous expansion
                //int nylines = fielddef[0]->m_numModes[1];
                //int nzlines = fielddef[0]->m_numModes[2];

				int nylines;
				int nzlines;
				vSession->LoadParameter("HomModesY",nylines,fielddef[0]->m_numModes[1]);
				vSession->LoadParameter("HomModesZ",nzlines,fielddef[0]->m_numModes[2]);

                // choose points to be at evenly spaced points at
                // nplanes points
                const LibUtilities::PointsKey PkeyY(nylines,LibUtilities::ePolyEvenlySpaced);
                const LibUtilities::BasisKey  BkeyY(fielddef[0]->m_basis[1],nylines,PkeyY);

                const LibUtilities::PointsKey PkeyZ(nzlines,LibUtilities::ePolyEvenlySpaced);
                const LibUtilities::BasisKey  BkeyZ(fielddef[0]->m_basis[2],nzlines,PkeyZ);

                NekDouble ly = fielddef[0]->m_homogeneousLengths[0];
                NekDouble lz = fielddef[0]->m_homogeneousLengths[1];

                Exp3DH2 = MemoryManager<MultiRegions::ExpList3DHomogeneous2D>::AllocateSharedPtr(vSession,BkeyY,BkeyZ,ly,lz,useFFT,dealiasing,graphShPt);
                Exp[0] = Exp3DH2;

                for(i = 1; i < nfields; ++i)
                {
                    Exp[i] = MemoryManager<MultiRegions::ExpList3DHomogeneous2D>::AllocateSharedPtr(*Exp3DH2);
                }
            }
            else
            {
                MultiRegions::ExpList1DSharedPtr Exp1D;
                Exp1D = MemoryManager<MultiRegions::ExpList1D>
                                                        ::AllocateSharedPtr(vSession,graphShPt);
                Exp[0] = Exp1D;
                for(i = 1; i < nfields + addfields; ++i)
                {
                    Exp[i] = MemoryManager<MultiRegions::ExpList1D>
                                                        ::AllocateSharedPtr(*Exp1D);
                }
            }
        }
        break;
    case 2:
        {
            ASSERTL0(fielddef[0]->m_numHomogeneousDir <= 1,"NumHomogeneousDir is only set up for 1");

            if(fielddef[0]->m_numHomogeneousDir == 1)
            {
                MultiRegions::ExpList3DHomogeneous1DSharedPtr Exp3DH1;

                // Define Homogeneous expansion
                //int nplanes = fielddef[0]->m_numModes[2];

				int nplanes;
				vSession->LoadParameter("HomModesZ",nplanes,fielddef[0]->m_numModes[2]);

                // choose points to be at evenly spaced points at
                // nplanes points
                const LibUtilities::PointsKey Pkey(nplanes,LibUtilities::ePolyEvenlySpaced);
                const LibUtilities::BasisKey  Bkey(fielddef[0]->m_basis[2],nplanes,Pkey);
                NekDouble lz = fielddef[0]->m_homogeneousLengths[0];

                Exp3DH1 = MemoryManager<MultiRegions::ExpList3DHomogeneous1D>::AllocateSharedPtr(vSession,Bkey,lz,useFFT,dealiasing,graphShPt);
                Exp[0] = Exp3DH1;

                for(i = 1; i < nfields + addfields; ++i)
                {
                    Exp[i] = MemoryManager<MultiRegions::ExpList3DHomogeneous1D>::AllocateSharedPtr(*Exp3DH1);

                }
            }
            else
            {
                MultiRegions::ExpList2DSharedPtr Exp2D;
                Exp2D = MemoryManager<MultiRegions::ExpList2D>
                                                        ::AllocateSharedPtr(vSession,graphShPt);
                Exp[0] =  Exp2D;

                for(i = 1; i < nfields + addfields; ++i)
                {
                    Exp[i] = MemoryManager<MultiRegions::ExpList2D>
                        ::AllocateSharedPtr(*Exp2D);
                }
            }
        }
        break;
    case 3:
        {
            MultiRegions::ExpList3DSharedPtr Exp3D;
            Exp3D = MemoryManager<MultiRegions::ExpList3D>
                                                    ::AllocateSharedPtr(vSession,graphShPt);
            Exp[0] =  Exp3D;

            for(i = 1; i < nfields + addfields; ++i)
            {
                Exp[i] = MemoryManager<MultiRegions::ExpList3D>
                    ::AllocateSharedPtr(*Exp3D);
            }
        }
        break;
    default:
        ASSERTL0(false,"Expansion dimension not recognised");
        break;
    }
    //----------------------------------------------

    //----------------------------------------------
    // Copy data from field file
    for(j = 0; j < nfields; ++j)
    {
        for(int i = 0; i < fielddata.size(); ++i)
        {
            Exp[j]->ExtractDataToCoeffs(fielddef [i],
                                        fielddata[i],
                                        fielddef [i]->m_fields[j],
                                        Exp[j]->UpdateCoeffs());
        }
        Exp[j]->BwdTrans(Exp[j]->GetCoeffs(),Exp[j]->UpdatePhys());
    }
    //----------------------------------------------

    //----------------------------------------------
    // Compute gradients of fields
    ASSERTL0(nfields >= 3, "Need two fields (u,v) to add reentricity");
    int nq = Exp[0]->GetNpoints();
    Array<OneD, Array<OneD, NekDouble> > grad(nfields*nfields);
    Array<OneD, Array<OneD, NekDouble> > outfield(addfields);

    for(i = 0; i < nfields*nfields; ++i)
    {
        grad[i] = Array<OneD, NekDouble>(nq);
    }

    for(i = 0; i < addfields; ++i)
    {
        outfield[i] = Array<OneD, NekDouble>(nq);
    }

    // Calculate Gradient & Vorticity
    if(nfields == 3)
    {
        for(i = 0; i < nfields; ++i)
        {
            Exp[i]->PhysDeriv(Exp[i]->GetPhys(), grad[i*nfields],grad[i*nfields+1]);
        }
        // W_z = Vx - Uy
        Vmath::Vsub(nq,grad[1*nfields+0],1,grad[0*nfields+1],1,outfield[0],1);
    }
    else
    {
        for(i = 0; i < nfields; ++i)
        {
            Exp[i]->PhysDeriv(Exp[i]->GetPhys(), grad[i*nfields],grad[i*nfields+1],grad[i*nfields+2]);
        }

        // W_x = Wy - Vz
        Vmath::Vsub(nq,grad[2*nfields+1],1,grad[1*nfields+2],1,outfield[0],1);
        // W_y = Uz - Wx
        Vmath::Vsub(nq,grad[0*nfields+2],1,grad[2*nfields+0],1,outfield[1],1);
        // W_z = Vx - Uy
        Vmath::Vsub(nq,grad[1*nfields+0],1,grad[0*nfields+1],1,outfield[2],1);
    }

    for (i = 0; i < addfields; ++i)
    {
        Exp[nfields + i]->FwdTrans(outfield[i], Exp[nfields+i]->UpdateCoeffs());
    }

    //-----------------------------------------------
    // Write solution to file with additional computed fields
    string   out(argv[argc-1]);
    std::vector<LibUtilities::FieldDefinitionsSharedPtr> FieldDef
        = Exp[0]->GetFieldDefinitions();
    std::vector<std::vector<NekDouble> > FieldData(FieldDef.size());

    vector<string > outname;

    if(addfields == 1)
    {
        outname.push_back("W_z");
    }
    else
    {
        outname.push_back("W_x");
        outname.push_back("W_y");
        outname.push_back("W_z");
    }

    for(j = 0; j < nfields + addfields; ++j)
    {
        for(i = 0; i < FieldDef.size(); ++i)
        {
            if (j >= nfields)
            {
                FieldDef[i]->m_fields.push_back(outname[j-nfields]);
            }
            else
            {
                FieldDef[i]->m_fields.push_back(fielddef[i]->m_fields[j]);
            }
            Exp[j]->AppendFieldData(FieldDef[i], FieldData[i]);
        }
    }
    LibUtilities::Write(out, FieldDef, FieldData);
    //-----------------------------------------------

    return 0;
}