Info<< "Creating reaction model\n" << endl;

autoPtr<combustionModels::rhoCombustionModel> reaction
(
    combustionModels::rhoCombustionModel::New(mesh)
);

rhoReactionThermo& thermo = reaction->thermo();
thermo.validate(args.executable(), "h", "e");

basicMultiComponentMixture& composition = thermo.composition();
PtrList<volScalarField>& Y = composition.Y();

word inertSpecie(thermo.lookup("inertSpecie"));

volScalarField rho
(
    IOobject
    (
        "rho",
        runTime.timeName(),
        mesh
    ),
    thermo.rho()
);

Info<< "Reading field U\n" << endl;
volVectorField U
(
    IOobject
    (
        "U",
        runTime.timeName(),
        mesh,
        IOobject::MUST_READ,
        IOobject::AUTO_WRITE
    ),
    mesh
);


volScalarField& p = thermo.p();
const volScalarField& psi = thermo.psi();
const volScalarField& T = thermo.T();


#include "compressibleCreatePhi.H"


Info << "Creating turbulence model.\n" << nl;
autoPtr<compressible::turbulenceModel> turbulence
(
    compressible::turbulenceModel::New
    (
        rho,
        U,
        phi,
        thermo
    )
);

// Set the turbulence into the reaction model
reaction->setTurbulence(turbulence());


#include "readGravitationalAcceleration.H"
#include "readhRef.H"

Info<< "Calculating field g.h\n" << endl;
dimensionedScalar ghRef(g & (cmptMag(g.value())/mag(g.value()))*hRef);
volScalarField gh("gh", (g & mesh.C()) - ghRef);
surfaceScalarField ghf("ghf", (g & mesh.Cf()) - ghRef);


Info<< "Reading field p_rgh\n" << endl;
volScalarField p_rgh
(
    IOobject
    (
        "p_rgh",
        runTime.timeName(),
        mesh,
        IOobject::MUST_READ,
        IOobject::AUTO_WRITE
    ),
    mesh
);

// Force p_rgh to be consistent with p
p_rgh = p - rho*gh;

Info<< "Creating field dpdt\n" << endl;
volScalarField dpdt
(
    IOobject
    (
        "dpdt",
        runTime.timeName(),
        mesh
    ),
    mesh,
    dimensionedScalar("dpdt", p.dimensions()/dimTime, 0)
);

Info<< "Creating field kinetic energy K\n" << endl;
volScalarField K("K", 0.5*magSqr(U));


multivariateSurfaceInterpolationScheme<scalar>::fieldTable fields;

forAll(Y, i)
{
    fields.add(Y[i]);
}
fields.add(thermo.he());

volScalarField dQ
(
    IOobject
    (
        "dQ",
        runTime.timeName(),
        mesh,
        IOobject::NO_READ,
        IOobject::AUTO_WRITE
    ),
    mesh,
    dimensionedScalar("dQ", dimEnergy/dimTime, 0.0)
);