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| 1 | // -*- mode: C++; tab-width: 4; indent-tabs-mode: nil; c-basic-offset: 4 -*- | ||
| 2 | // vi: set et ts=4 sw=4 sts=4: | ||
| 3 | // | ||
| 4 | // SPDX-FileCopyrightInfo: Copyright © DuMux Project contributors, see AUTHORS.md in root folder | ||
| 5 | // SPDX-License-Identifier: GPL-3.0-or-later | ||
| 6 | // | ||
| 7 | /** | ||
| 8 | * \file | ||
| 9 | * \ingroup EmbeddedTests | ||
| 10 | * \brief Definition of a problem, for the 1p2c problem: | ||
| 11 | * Component transport of oxygen in interstitial fluid. | ||
| 12 | */ | ||
| 13 | |||
| 14 | #ifndef DUMUX_TISSUE_PROBLEM_HH | ||
| 15 | #define DUMUX_TISSUE_PROBLEM_HH | ||
| 16 | |||
| 17 | #include <dune/geometry/quadraturerules.hh> | ||
| 18 | #include <dune/localfunctions/lagrange/pqkfactory.hh> | ||
| 19 | |||
| 20 | #include <dumux/common/boundarytypes.hh> | ||
| 21 | #include <dumux/common/math.hh> | ||
| 22 | #include <dumux/common/parameters.hh> | ||
| 23 | #include <dumux/common/properties.hh> | ||
| 24 | #include <dumux/common/numeqvector.hh> | ||
| 25 | |||
| 26 | #include <dumux/porousmediumflow/problem.hh> | ||
| 27 | |||
| 28 | namespace Dumux { | ||
| 29 | |||
| 30 | /*! | ||
| 31 | * \ingroup EmbeddedTests | ||
| 32 | * \brief Definition of a problem, for the 1p2c problem: | ||
| 33 | * Component transport of oxygen in interstitial fluid. | ||
| 34 | */ | ||
| 35 | template <class TypeTag> | ||
| 36 | class SoilProblem : public PorousMediumFlowProblem<TypeTag> | ||
| 37 | { | ||
| 38 | using ParentType = PorousMediumFlowProblem<TypeTag>; | ||
| 39 | using Scalar = GetPropType<TypeTag, Properties::Scalar>; | ||
| 40 | using GridGeometry = GetPropType<TypeTag, Properties::GridGeometry>; | ||
| 41 | using FVElementGeometry = typename GridGeometry::LocalView; | ||
| 42 | using SubControlVolume = typename GridGeometry::SubControlVolume; | ||
| 43 | using GridView = typename GridGeometry::GridView; | ||
| 44 | using GlobalPosition = typename GridGeometry::GlobalCoordinate; | ||
| 45 | using PrimaryVariables = GetPropType<TypeTag, Properties::PrimaryVariables>; | ||
| 46 | using NumEqVector = Dumux::NumEqVector<PrimaryVariables>; | ||
| 47 | using SolutionVector = GetPropType<TypeTag, Properties::SolutionVector>; | ||
| 48 | using GridVariables = GetPropType<TypeTag, Properties::GridVariables>; | ||
| 49 | using BoundaryTypes = Dumux::BoundaryTypes<GetPropType<TypeTag, Properties::ModelTraits>::numEq()>; | ||
| 50 | using PointSource = GetPropType<TypeTag, Properties::PointSource>; | ||
| 51 | using Element = typename GridView::template Codim<0>::Entity; | ||
| 52 | |||
| 53 | using CouplingManager = GetPropType<TypeTag, Properties::CouplingManager>; | ||
| 54 | |||
| 55 | public: | ||
| 56 | using FluidSystem = GetPropType<TypeTag, Properties::FluidSystem>; | ||
| 57 | enum Indices { | ||
| 58 | // world dimension | ||
| 59 | dim = GridView::dimension, | ||
| 60 | dimWorld = GridView::dimensionworld, | ||
| 61 | |||
| 62 | pressureIdx = 0, | ||
| 63 | transportCompIdx = 1, | ||
| 64 | |||
| 65 | conti0EqIdx = 0, | ||
| 66 | transportEqIdx = 1, | ||
| 67 | |||
| 68 | liquidPhaseIdx = FluidSystem::liquidPhaseIdx | ||
| 69 | }; | ||
| 70 | |||
| 71 | 1 | SoilProblem(std::shared_ptr<const GridGeometry> gridGeometry, | |
| 72 | std::shared_ptr<CouplingManager> couplingManager) | ||
| 73 | : ParentType(gridGeometry, "Soil") | ||
| 74 |
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3 | , couplingManager_(couplingManager) |
| 75 | { | ||
| 76 | //read parameters from input file | ||
| 77 |
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2 | name_ = getParam<std::string>("Vtk.OutputName") + "_" + getParamFromGroup<std::string>(this->paramGroup(), "Problem.Name"); |
| 78 |
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1 | contaminantMoleFraction_ = getParam<Scalar>("Problem.ContaminantMoleFraction"); |
| 79 | |||
| 80 | // for initial conditions | ||
| 81 |
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1 | const Scalar sw = getParam<Scalar>("Problem.InitTopSaturation", 0.3); // start with 30% saturation on top |
| 82 | 5 | pcTop_ = this->spatialParams().fluidMatrixInteractionAtPos(gridGeometry->bBoxMax()).pc(sw); | |
| 83 | 1 | } | |
| 84 | |||
| 85 | /*! | ||
| 86 | * \name Problem parameters | ||
| 87 | */ | ||
| 88 | // \{ | ||
| 89 | |||
| 90 | /*! | ||
| 91 | * \brief The problem name. | ||
| 92 | * | ||
| 93 | * This is used as a prefix for files generated by the simulation. | ||
| 94 | */ | ||
| 95 | const std::string& name() const | ||
| 96 |
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1 | { return name_; } |
| 97 | |||
| 98 | /* | ||
| 99 | * \brief Returns the reference pressure [Pa] of the nonwetting | ||
| 100 | * fluid phase within a finite volume. | ||
| 101 | * | ||
| 102 | * This problem assumes a constant reference pressure of 1 bar. | ||
| 103 | */ | ||
| 104 | ✗ | Scalar nonwettingReferencePressure() const | |
| 105 | ✗ | { return 1.0e5; } | |
| 106 | |||
| 107 | |||
| 108 | // \} | ||
| 109 | |||
| 110 | /*! | ||
| 111 | * \name Boundary conditions | ||
| 112 | */ | ||
| 113 | // \{ | ||
| 114 | |||
| 115 | /*! | ||
| 116 | * \brief Specifies which kind of boundary condition should be | ||
| 117 | * used for which equation on a given boundary segment. | ||
| 118 | * | ||
| 119 | * \param globalPos The position for which the bc type should be evaluated | ||
| 120 | */ | ||
| 121 | ✗ | BoundaryTypes boundaryTypesAtPos(const GlobalPosition &globalPos) const | |
| 122 | { | ||
| 123 | 93708 | BoundaryTypes values; | |
| 124 |
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93708 | values.setAllNeumann(); |
| 125 | ✗ | return values; | |
| 126 | } | ||
| 127 | |||
| 128 | /*! | ||
| 129 | * \brief Evaluates the boundary conditions for a Dirichlet boundary segment. | ||
| 130 | * | ||
| 131 | * \param globalPos The position for which the bc type should be evaluated | ||
| 132 | * | ||
| 133 | * For this method, the \a values parameter stores primary variables. | ||
| 134 | */ | ||
| 135 | PrimaryVariables dirichletAtPos(const GlobalPosition &globalPos) const | ||
| 136 | ✗ | { return initialAtPos(globalPos); } | |
| 137 | |||
| 138 | // \} | ||
| 139 | |||
| 140 | /*! | ||
| 141 | * \name Volume terms | ||
| 142 | */ | ||
| 143 | // \{ | ||
| 144 | |||
| 145 | /*! | ||
| 146 | * \brief Applies a vector of point sources which are possibly solution dependent. | ||
| 147 | * | ||
| 148 | * \param pointSources A vector of Dumux::PointSource s that contain | ||
| 149 | source values for all phases and space positions. | ||
| 150 | * | ||
| 151 | * For this method, the \a values method of the point source | ||
| 152 | * has to return the absolute mass rate in kg/s. Positive values mean | ||
| 153 | * that mass is created, negative ones mean that it vanishes. | ||
| 154 | */ | ||
| 155 | void addPointSources(std::vector<PointSource>& pointSources) const | ||
| 156 |
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1 | { pointSources = this->couplingManager().bulkPointSources(); } |
| 157 | |||
| 158 | /*! | ||
| 159 | * \brief Evaluates the point sources (added by addPointSources) | ||
| 160 | * for all phases within a given sub control volume. | ||
| 161 | * | ||
| 162 | * This is the method for the case where the point source is | ||
| 163 | * solution dependent and requires some quantities that | ||
| 164 | * are specific to the fully-implicit method. | ||
| 165 | * | ||
| 166 | * \param source A single point source | ||
| 167 | * \param element The finite element | ||
| 168 | * \param fvGeometry The finite-volume geometry | ||
| 169 | * \param elemVolVars All volume variables for the element | ||
| 170 | * \param scv The sub control volume within the element | ||
| 171 | * | ||
| 172 | * For this method, the \a values() method of the point sources returns | ||
| 173 | * the absolute rate mass generated or annihilated in kg/s. Positive values mean | ||
| 174 | * that mass is created, negative ones mean that it vanishes. | ||
| 175 | */ | ||
| 176 | template<class ElementVolumeVariables> | ||
| 177 | 2853484 | void pointSource(PointSource& source, | |
| 178 | const Element &element, | ||
| 179 | const FVElementGeometry& fvGeometry, | ||
| 180 | const ElementVolumeVariables& elemVolVars, | ||
| 181 | const SubControlVolume &scv) const | ||
| 182 | { | ||
| 183 | 2853484 | NumEqVector sourceValues; | |
| 184 | |||
| 185 | // compute source at every integration point | ||
| 186 | 8560452 | const auto priVars3D = this->couplingManager().bulkPriVars(source.id()); | |
| 187 | 8560452 | const auto priVars1D = this->couplingManager().lowDimPriVars(source.id()); | |
| 188 |
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2853484 | const Scalar pressure3D = priVars3D[pressureIdx]; |
| 189 |
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2853484 | const Scalar pressure1D = priVars1D[pressureIdx]; |
| 190 | |||
| 191 |
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2853484 | const auto& spatialParams = this->couplingManager().problem(Dune::index_constant<1>{}).spatialParams(); |
| 192 | 8560452 | const auto lowDimElementIdx = this->couplingManager().pointSourceData(source.id()).lowDimElementIdx(); | |
| 193 | 2853484 | const Scalar Kr = spatialParams.Kr(lowDimElementIdx); | |
| 194 |
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2853484 | const Scalar rootRadius = spatialParams.radius(lowDimElementIdx); |
| 195 | |||
| 196 | // sink defined as radial flow Jr * density [m^2 s-1]* [kg m-3] | ||
| 197 | 2853484 | const auto molarDensityH20 = 1000 / 0.018; | |
| 198 |
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2853484 | sourceValues[conti0EqIdx] = 2 * M_PI * rootRadius * Kr * (pressure1D - pressure3D) * molarDensityH20; |
| 199 | |||
| 200 |
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2853484 | const Scalar x3D = priVars3D[transportCompIdx]; |
| 201 |
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2853484 | const Scalar x1D = priVars1D[transportCompIdx]; |
| 202 | |||
| 203 | //! Advective transport over root wall | ||
| 204 | // compute correct upwind concentration | ||
| 205 |
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5706968 | if (sourceValues[conti0EqIdx] > 0) |
| 206 | ✗ | sourceValues[transportEqIdx] = sourceValues[conti0EqIdx]*x1D; | |
| 207 | else | ||
| 208 | 8560452 | sourceValues[transportEqIdx] = sourceValues[conti0EqIdx]*x3D; | |
| 209 | |||
| 210 | //! Diffusive transport over root wall | ||
| 211 | 2853484 | const auto molarDensityD20 = 1000 / 0.020; | |
| 212 | 2853484 | sourceValues[transportEqIdx] += 2 * M_PI * rootRadius * 1.0e-8 * (x1D - x3D) * molarDensityD20; | |
| 213 | |||
| 214 | 2853484 | sourceValues *= source.quadratureWeight()*source.integrationElement(); | |
| 215 | 5706968 | source = sourceValues; | |
| 216 | 2853484 | } | |
| 217 | |||
| 218 | /*! | ||
| 219 | * \brief Evaluates the initial value for a control volume. | ||
| 220 | * | ||
| 221 | * \param globalPos The position for which the initial condition should be evaluated | ||
| 222 | * | ||
| 223 | * For this method, the \a values parameter stores primary | ||
| 224 | * variables. | ||
| 225 | */ | ||
| 226 | 3198 | PrimaryVariables initialAtPos(const GlobalPosition &globalPos) const | |
| 227 | { | ||
| 228 |
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3198 | const auto& gg = this->gridGeometry(); |
| 229 |
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3198 | static const Scalar extend = 0.15*(gg.bBoxMax()[0]-gg.bBoxMin()[0]); |
| 230 | 3198 | const auto xTracer = [&]() | |
| 231 | { | ||
| 232 | 9594 | auto contaminationPos = gg.bBoxMax()-gg.bBoxMin(); | |
| 233 | 3198 | contaminationPos[0] *= 0.26; | |
| 234 | 3198 | contaminationPos[1] *= 0.56; | |
| 235 | 3198 | contaminationPos[2] *= 0.26; | |
| 236 | 6396 | contaminationPos += gg.bBoxMin(); | |
| 237 | |||
| 238 |
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9594 | if ((globalPos - contaminationPos).infinity_norm() < extend + eps_) |
| 239 | 216 | return contaminantMoleFraction_; | |
| 240 | else | ||
| 241 | return 0.0; | ||
| 242 | 3414 | }(); | |
| 243 | |||
| 244 | 3198 | PrimaryVariables priVars(0.0); | |
| 245 | //! Hydrostatic pressure profile | ||
| 246 | 9594 | priVars[pressureIdx] = (nonwettingReferencePressure() - pcTop_) | |
| 247 | 12792 | -9.81*1000*(globalPos[dimWorld-1] - gg.bBoxMax()[dimWorld-1]); | |
| 248 | 6396 | priVars[transportCompIdx] = xTracer; | |
| 249 | 3198 | return priVars; | |
| 250 | } | ||
| 251 | |||
| 252 | //! Get the coupling manager | ||
| 253 | const CouplingManager& couplingManager() const | ||
| 254 |
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11413938 | { return *couplingManager_; } |
| 255 | |||
| 256 | private: | ||
| 257 | Scalar pcTop_, contaminantMoleFraction_; | ||
| 258 | |||
| 259 | static constexpr Scalar eps_ = 1.5e-7; | ||
| 260 | std::string name_; | ||
| 261 | |||
| 262 | std::shared_ptr<CouplingManager> couplingManager_; | ||
| 263 | }; | ||
| 264 | |||
| 265 | } // end namespace Dumux | ||
| 266 | |||
| 267 | #endif | ||
| 268 |