////////////////////////////////////////////////////////////////////////////////
//
//  File: ProcessJacobianEnergy.cpp
//
//  For more information, please see: http://www.nektar.info/
//
//  The MIT License
//
//  Copyright (c) 2006 Division of Applied Mathematics, Brown University (USA),
//  Department of Aeronautics, Imperial College London (UK), and Scientific
//  Computing and Imaging Institute, University of Utah (USA).
//
//  Permission is hereby granted, free of charge, to any person obtaining a
//  copy of this software and associated documentation files (the "Software"),
//  to deal in the Software without restriction, including without limitation
//  the rights to use, copy, modify, merge, publish, distribute, sublicense,
//  and/or sell copies of the Software, and to permit persons to whom the
//  Software is furnished to do so, subject to the following conditions:
//
//  The above copyright notice and this permission notice shall be included
//  in all copies or substantial portions of the Software.
//
//  THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS
//  OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
//  FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL
//  THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
//  LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING
//  FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER
//  DEALINGS IN THE SOFTWARE.
//
//  Description: Compute energy of Jacobian.
//
////////////////////////////////////////////////////////////////////////////////

#include <iostream>
#include <string>
using namespace std;

#include <LibUtilities/BasicUtils/SharedArray.hpp>

#include "ProcessJacobianEnergy.h"

namespace Nektar::FieldUtils
{

ModuleKey ProcessJacobianEnergy::className =
    GetModuleFactory().RegisterCreatorFunction(
        ModuleKey(eProcessModule, "jacobianenergy"),
        ProcessJacobianEnergy::create,
        "Show high frequency energy of Jacobian.");

ProcessJacobianEnergy::ProcessJacobianEnergy(FieldSharedPtr f)
    : ProcessModule(f)
{
    m_config["topmodes"] =
        ConfigOption(false, "1", "how many top modes to keep ");
}

ProcessJacobianEnergy::~ProcessJacobianEnergy()
{
}

void ProcessJacobianEnergy::v_Process(po::variables_map &vm)
{
    m_f->SetUpExp(vm);

    int nfields = m_f->m_variables.size();
    m_f->m_variables.push_back("jacenergy");
    // Skip in case of empty partition
    if (m_f->m_exp[0]->GetNumElmts() == 0)
    {
        return;
    }

    int NumHomogeneousDir = m_f->m_numHomogeneousDir;
    MultiRegions::ExpListSharedPtr exp;

    if (nfields)
    {
        m_f->m_exp.resize(nfields + 1);
        exp                 = m_f->AppendExpList(NumHomogeneousDir);
        m_f->m_exp[nfields] = exp;
    }
    else
    {
        exp = m_f->m_exp[0];
    }

    Array<OneD, NekDouble> phys   = exp->UpdatePhys();
    Array<OneD, NekDouble> coeffs = exp->UpdateCoeffs();
    Array<OneD, NekDouble> tmp;

    for (int i = 0; i < exp->GetExpSize(); ++i)
    {
        // copy Jacobian into field
        StdRegions::StdExpansionSharedPtr Elmt = exp->GetExp(i);

        const StdRegions::StdExpansion *sep = &(*Elmt);
        const LocalRegions::Expansion *lep =
            dynamic_cast<const LocalRegions::Expansion *>(sep);

        int nquad                        = Elmt->GetTotPoints();
        int coeffoffset                  = exp->GetCoeff_Offset(i);
        Array<OneD, const NekDouble> Jac = lep->GetGeomFactors()->GetJac();
        if (lep->GetGeomFactors()->GetGtype() == SpatialDomains::eRegular)
        {
            Vmath::Fill(nquad, Jac[0], phys, 1);
        }
        else
        {
            Vmath::Vcopy(nquad, Jac, 1, phys, 1);
        }

        if (lep->GetGeomFactors()->GetGtype() == SpatialDomains::eDeformed)
        {
            NekDouble jacmax = Vmath::Vmax(nquad, Jac, 1);
            NekDouble jacmin = Vmath::Vmin(nquad, Jac, 1);

            NekDouble jacmeasure = jacmax / jacmin - 1.0;
            Vmath::Fill(nquad, jacmeasure, phys, 1);
        }
        else
        {
            Vmath::Fill(nquad, 0.0, phys, 1);
        }

        Elmt->FwdTrans(phys, tmp = coeffs + coeffoffset);
    }
    exp->BwdTrans(coeffs, phys);
}
} // namespace Nektar::FieldUtils
