/*---------------------------------------------------------------------------*\
  =========                 |
  \\      /  F ield         | OpenFOAM: The Open Source CFD Toolbox
   \\    /   O peration     |
    \\  /    A nd           | Copyright (C) 2016 OpenFOAM Foundation
     \\/     M anipulation  |
-------------------------------------------------------------------------------
License
    This file is part of OpenFOAM.

    OpenFOAM is free software: you can redistribute it and/or modify it
    under the terms of the GNU General Public License as published by
    the Free Software Foundation, either version 3 of the License, or
    (at your option) any later version.

    OpenFOAM is distributed in the hope that it will be useful, but WITHOUT
    ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or
    FITNESS FOR A PARTICULAR PURPOSE.  See the GNU General Public License
    for more details.

    You should have received a copy of the GNU General Public License
    along with OpenFOAM.  If not, see <http://www.gnu.org/licenses/>.

\*---------------------------------------------------------------------------*/

#include "diffusivityModel.H"

#include "IFstream.H"
#include "speciesTable.H"
#include "volFieldsFwd.H"
#include "scalarMatrices.H"

// * * * * * * * * * * * * * * Static Data Members * * * * * * * * * * * * * //

// const dataType Foam::diffusivityModel::staticData();


// * * * * * * * * * * * * * Static Member Functions * * * * * * * * * * * * //


// * * * * * * * * * * * * * Private Member Functions  * * * * * * * * * * * //


// * * * * * * * * * * * * Protected Member Functions  * * * * * * * * * * * //


// * * * * * * * * * * * * * * * * Constructors  * * * * * * * * * * * * * * //

Foam::diffusivityModel::diffusivityModel(const psiReactionThermo& thermo)
:
    thermo_(thermo),
    D_(thermo_.composition().species().size())
{

    const speciesTable &species_(thermo_.composition().species());

    const volScalarField::Mesh &mesh = thermo_.composition().Y(0).mesh();

    dictionary transports
    (
        IFstream
        (
            fileName(thermo_.lookup("foamTransportFile")).expand()
        )()
    );


    forAll(species_, i)
    {
        // transports[species_[i]];
        Info << species_[i] << endl;
        Info << thermo_.composition().W(i) << endl;
        Info << thermo_.composition().Qc(i) << endl;
        Info << thermo_.composition().z(i) << endl;
        Info << readScalar(transports.subDict(species_[i]).subDict("transport")["As"]) << endl;
    }
/*
*/

    forAll(species_, i)
    {
        D_.set
        (
            i,
            new volScalarField
            (
                IOobject
                (
                    "D." + species_[i],
                    mesh.time().timeName(),
                    mesh,
                    IOobject::NO_READ,
                    IOobject::AUTO_WRITE
                ),
                mesh,
                dimensionedScalar("zero", dimArea/dimTime, 0.0)
            )
        );
    }

}

Foam::diffusivityModel::diffusivityModel(const diffusivityModel& dm)
:
    thermo_(dm.thermo_)
{}


// * * * * * * * * * * * * * * * * Selectors * * * * * * * * * * * * * * * * //

// Foam::autoPtr<Foam::diffusivityModel>
// Foam::diffusivityModel::New()
// {
//     return autoPtr<diffusivityModel>(new diffusivityModel);
// }


// * * * * * * * * * * * * * * * * Destructor  * * * * * * * * * * * * * * * //

Foam::diffusivityModel::~diffusivityModel()
{}


// * * * * * * * * * * * * * * Member Functions  * * * * * * * * * * * * * * //

void Foam::diffusivityModel::correct()
{
    const volScalarField &T = thermo_.T();
    const volScalarField &p = thermo_.p();

    const speciesTable &species_(thermo_.composition().species());

    scalarSymmetricSquareMatrix Dij(species_.size());

    forAll (species_, celli)
    {
        const scalar pi = p[celli];
        const scalar Ti = T[celli];

        label idx = 0;

        forAll (species_, i)
        {
            for (label j = i; j < species_.size(); j++)
            {
                // Calculate Dij
                // Dij[idx] = interactions[idx].D(pi,Ti);
                Dij(i,j) = idx;
                Dij(j,i) = Dij(i,j);
                idx++;
            }

            // DMat = 0;

        }
    }

    return;
}


// * * * * * * * * * * * * * * Member Operators  * * * * * * * * * * * * * * //

void Foam::diffusivityModel::operator=(const diffusivityModel& rhs)
{
    // Check for assignment to self
    if (this == &rhs)
    {
        FatalErrorInFunction
            << "Attempted assignment to self"
            << abort(FatalError);
    }
}

// * * * * * * * * * * * * * * Friend Functions  * * * * * * * * * * * * * * //


// * * * * * * * * * * * * * * Friend Operators * * * * * * * * * * * * * * //


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