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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-FileCopyrightText: 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 InputOutput | ||
| 10 | * \brief Class for grid data attached to dgf or gmsh grid files | ||
| 11 | */ | ||
| 12 | #ifndef DUMUX_IO_GRID_DATA_HH | ||
| 13 | #define DUMUX_IO_GRID_DATA_HH | ||
| 14 | |||
| 15 | #include <vector> | ||
| 16 | #include <memory> | ||
| 17 | #include <type_traits> | ||
| 18 | |||
| 19 | #include <dune/common/exceptions.hh> | ||
| 20 | #include <dune/common/parallel/communication.hh> | ||
| 21 | #include <dune/common/parallel/mpihelper.hh> | ||
| 22 | #include <dune/grid/common/gridfactory.hh> | ||
| 23 | #include <dune/grid/common/capabilities.hh> | ||
| 24 | #include <dune/grid/io/file/dgfparser/parser.hh> | ||
| 25 | #include <dune/grid/io/file/dgfparser/gridptr.hh> | ||
| 26 | #include <dumux/io/vtk/vtkreader.hh> | ||
| 27 | |||
| 28 | // UGGrid specific includes | ||
| 29 | #if HAVE_DUNE_UGGRID | ||
| 30 | #include <dune/grid/uggrid.hh> | ||
| 31 | #endif | ||
| 32 | |||
| 33 | #include "gridinput_.hh" | ||
| 34 | #include "gmshgriddatahandle.hh" | ||
| 35 | #include "vtkgriddatahandle.hh" | ||
| 36 | |||
| 37 | namespace Dumux { | ||
| 38 | |||
| 39 | namespace Detail { | ||
| 40 | |||
| 41 | template<class Grid> | ||
| 42 | struct isUG : public std::false_type {}; | ||
| 43 | |||
| 44 | #if HAVE_DUNE_UGGRID | ||
| 45 | template<int dim> | ||
| 46 | struct isUG<Dune::UGGrid<dim>> : public std::true_type {}; | ||
| 47 | #endif | ||
| 48 | |||
| 49 | } // end namespace Details | ||
| 50 | |||
| 51 | /*! | ||
| 52 | * \ingroup InputOutput | ||
| 53 | * \brief Class for grid data attached to dgf or gmsh grid files | ||
| 54 | */ | ||
| 55 | template <class Grid> | ||
| 56 | class GridData | ||
| 57 | { | ||
| 58 | using Intersection = typename Grid::LeafIntersection; | ||
| 59 | using Element = typename Grid::template Codim<0>::Entity; | ||
| 60 | using Vertex = typename Grid::template Codim<Grid::dimension>::Entity; | ||
| 61 | using GridInput = Detail::GridData::GridInput<Grid>; | ||
| 62 | using GmshDataHandle = GmshGridDataHandle<Grid, GridInput, std::vector<int>>; | ||
| 63 | using VtkDataHandle = VtkGridDataHandle<Grid, GridInput, std::vector<double>>; | ||
| 64 | public: | ||
| 65 | enum class DataSourceType { dgf, gmsh, vtk }; | ||
| 66 | |||
| 67 | //! constructor for gmsh grid data | ||
| 68 | 65 | GridData(std::shared_ptr<Grid> grid, std::shared_ptr<Dune::GridFactory<Grid>> factory, | |
| 69 | std::vector<int>&& elementMarkers, std::vector<int>&& boundaryMarkers, std::vector<int>&& faceMarkers = std::vector<int>{}) | ||
| 70 |
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65 | : gridPtr_(std::move(grid)) |
| 71 |
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65 | , gridInput_(std::make_shared<GridInput>(gridPtr_, std::move(factory))) |
| 72 |
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65 | , elementMarkers_(elementMarkers) |
| 73 |
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65 | , boundaryMarkers_(boundaryMarkers) |
| 74 |
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65 | , faceMarkers_(faceMarkers) |
| 75 |
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65 | , dataSourceType_(DataSourceType::gmsh) |
| 76 | 65 | {} | |
| 77 | |||
| 78 | //! constructor for dgf grid data | ||
| 79 | 88 | GridData(Dune::GridPtr<Grid> grid) | |
| 80 |
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88 | : dgfGrid_(std::move(grid)) |
| 81 |
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88 | , dataSourceType_(DataSourceType::dgf) |
| 82 | 88 | {} | |
| 83 | |||
| 84 | //! constructor for unstructured VTK grid data | ||
| 85 | 8 | GridData(std::shared_ptr<Grid> grid, std::shared_ptr<Dune::GridFactory<Grid>> factory, | |
| 86 | VTKReader::Data&& cellData, VTKReader::Data&& pointData) | ||
| 87 |
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8 | : gridPtr_(std::move(grid)) |
| 88 |
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8 | , gridInput_(std::make_shared<GridInput>(gridPtr_, std::move(factory))) |
| 89 |
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8 | , cellData_(cellData) |
| 90 |
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8 | , pointData_(pointData) |
| 91 |
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16 | , dataSourceType_(DataSourceType::vtk) |
| 92 | 8 | {} | |
| 93 | |||
| 94 | //! constructor for structured VTK grid data | ||
| 95 | template<class ImageGrid> | ||
| 96 | GridData(std::shared_ptr<Grid> grid, std::shared_ptr<ImageGrid> imageGrid, | ||
| 97 | VTKReader::Data&& cellData, VTKReader::Data&& pointData) | ||
| 98 | : gridPtr_(std::move(grid)) | ||
| 99 | , gridInput_(std::make_shared<GridInput>(gridPtr_, std::move(imageGrid))) | ||
| 100 | , cellData_(cellData) | ||
| 101 | , pointData_(pointData) | ||
| 102 | , dataSourceType_(DataSourceType::vtk) | ||
| 103 | {} | ||
| 104 | |||
| 105 | /*! | ||
| 106 | * \name DGF interface functions | ||
| 107 | */ | ||
| 108 | // \{ | ||
| 109 | |||
| 110 | /*! | ||
| 111 | * \brief Call the parameters function of the DGF grid pointer if available for vertex data | ||
| 112 | * \note You can only pass vertices that exist on level 0! | ||
| 113 | */ | ||
| 114 | 15686 | const std::vector<double>& parameters(const Vertex& vertex) const | |
| 115 | { | ||
| 116 |
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15686 | if (dataSourceType_ == DataSourceType::dgf) |
| 117 | { | ||
| 118 |
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15686 | if (vertex.level() != 0) |
| 119 | ✗ | DUNE_THROW(Dune::IOError, "You can only obtain parameters for level 0 vertices!"); | |
| 120 | |||
| 121 | 15686 | return dgfGrid_.parameters(vertex); | |
| 122 | } | ||
| 123 | else | ||
| 124 | ✗ | DUNE_THROW(Dune::InvalidStateException, "The parameters method is only available if the grid was constructed with a DGF file."); | |
| 125 | } | ||
| 126 | |||
| 127 | /*! | ||
| 128 | * \brief Call the parameters function of the DGF grid pointer if available for element data | ||
| 129 | */ | ||
| 130 | 138294 | const std::vector<double>& parameters(const Element& element) const | |
| 131 | { | ||
| 132 |
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138294 | if (dataSourceType_ == DataSourceType::dgf) |
| 133 | { | ||
| 134 |
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138294 | if (element.hasFather()) |
| 135 | { | ||
| 136 | 59529 | auto level0Element = element; | |
| 137 |
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120406 | while(level0Element.hasFather()) |
| 138 | 60877 | level0Element = level0Element.father(); | |
| 139 | |||
| 140 |
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59529 | return dgfGrid_.parameters(level0Element); |
| 141 | 30010 | } | |
| 142 | else | ||
| 143 | { | ||
| 144 | 78765 | return dgfGrid_.parameters(element); | |
| 145 | } | ||
| 146 | } | ||
| 147 | else | ||
| 148 | ✗ | DUNE_THROW(Dune::InvalidStateException, "The parameters method is only available if the grid was constructed with a DGF file."); | |
| 149 | } | ||
| 150 | |||
| 151 | /*! | ||
| 152 | * \brief Call the parameters function of the DGF grid pointer if available | ||
| 153 | */ | ||
| 154 | template <class GridImp, class IntersectionImp> | ||
| 155 | const Dune::DGFBoundaryParameter::type& parameters(const Dune::Intersection<GridImp, IntersectionImp>& intersection) const | ||
| 156 | { | ||
| 157 | if (dataSourceType_ == DataSourceType::dgf) | ||
| 158 | return dgfGrid_.parameters(intersection); | ||
| 159 | else | ||
| 160 | DUNE_THROW(Dune::InvalidStateException, "The parameters method is only available if the grid was constructed with a DGF file."); | ||
| 161 | } | ||
| 162 | |||
| 163 | // \} | ||
| 164 | |||
| 165 | /*! | ||
| 166 | * \name Gmsh interface functions | ||
| 167 | */ | ||
| 168 | // \{ | ||
| 169 | |||
| 170 | /*! | ||
| 171 | * \brief Return the boundary domain marker (Gmsh physical entity number) of an intersection | ||
| 172 | Only available when using Gmsh with GridParameterGroup.DomainMarkers = 1. | ||
| 173 | * \param boundarySegmentIndex The boundary segment index of the intersection (intersection.boundarySegmentIndex() | ||
| 174 | */ | ||
| 175 | 759198 | int getBoundaryDomainMarker(int boundarySegmentIndex) const | |
| 176 | { | ||
| 177 |
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759198 | if (dataSourceType_ != DataSourceType::gmsh) |
| 178 | ✗ | DUNE_THROW(Dune::InvalidStateException, "Domain markers are only available for gmsh grids."); | |
| 179 |
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759198 | if (boundarySegmentIndex >= boundaryMarkers_.size()) |
| 180 | ✗ | DUNE_THROW(Dune::RangeError, "Boundary segment index "<< boundarySegmentIndex << " bigger than number of boundary segments in grid.\n" | |
| 181 | "Make sure to call this function only for boundaries that were defined as physical entities in gmsh."); | ||
| 182 | 759198 | return boundaryMarkers_[boundarySegmentIndex]; | |
| 183 | } | ||
| 184 | |||
| 185 | /*! | ||
| 186 | * \brief Return the boundary domain marker (Gmsh physical entity number) of an intersection | ||
| 187 | Only available when using Gmsh with GridParameterGroup.DomainMarkers = 1. | ||
| 188 | * \param intersection The intersection to be evaluated | ||
| 189 | */ | ||
| 190 |
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21786 | int getBoundaryDomainMarker(const Intersection& intersection) const |
| 191 |
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21786 | { return getBoundaryDomainMarker(intersection.boundarySegmentIndex()); } |
| 192 | |||
| 193 | /*! | ||
| 194 | * \brief Returns true if an intersection was inserted during grid creation | ||
| 195 | */ | ||
| 196 | 480 | bool wasInserted(const Intersection& intersection) const | |
| 197 |
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480 | { return gridInput_->wasInserted(intersection); } |
| 198 | |||
| 199 | /*! | ||
| 200 | * \brief Return the element domain marker (Gmsh physical entity number) of an element. | ||
| 201 | Only available when using Gmsh with GridParameterGroup.DomainMarkers = 1. | ||
| 202 | * \param element The element to be evaluated | ||
| 203 | */ | ||
| 204 | 144487 | int getElementDomainMarker(const Element& element) const | |
| 205 | { | ||
| 206 |
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144487 | if (dataSourceType_ != DataSourceType::gmsh) |
| 207 |
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144487 | DUNE_THROW(Dune::InvalidStateException, "Domain markers are only available for gmsh grids."); |
| 208 | |||
| 209 | // parameters are only given for level 0 elements | ||
| 210 | 144487 | auto level0element = element; | |
| 211 |
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254390 | while (level0element.hasFather()) |
| 212 | 109903 | level0element = level0element.father(); | |
| 213 | |||
| 214 | // in the parallel case the data is load balanced and then accessed with indices of the index set | ||
| 215 | // for UGGrid element data is read on all processes since UGGrid can't communicate element data (yet) | ||
| 216 |
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144487 | if (gridPtr_->comm().size() > 1 && !Detail::isUG<Grid>::value) |
| 217 |
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32092 | return elementMarkers_[gridPtr_->levelGridView(0).indexSet().index(level0element)]; |
| 218 | else | ||
| 219 |
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112395 | return elementMarkers_[gridInput_->insertionIndex(level0element)]; |
| 220 | 63892 | } | |
| 221 | |||
| 222 | /*! | ||
| 223 | * \brief Create a data handle for communication of the data in parallel simulations | ||
| 224 | * \note this data handle is the default | ||
| 225 | */ | ||
| 226 | template<bool ug = Detail::isUG<Grid>::value, typename std::enable_if_t<!ug, int> = 0> | ||
| 227 | 4 | GmshDataHandle createGmshDataHandle() | |
| 228 | { | ||
| 229 | 4 | return GmshDataHandle(*gridPtr_, *gridInput_, elementMarkers_, boundaryMarkers_, faceMarkers_); | |
| 230 | } | ||
| 231 | |||
| 232 | /*! | ||
| 233 | * \brief Create a data handle for communication of the data in parallel simulations | ||
| 234 | * \note this data handle is the specialized for UGGrid since UGGrid can't communicate element data (yet) | ||
| 235 | */ | ||
| 236 | template<bool ug = Detail::isUG<Grid>::value, typename std::enable_if_t<ug, int> = 0> | ||
| 237 | 4 | GmshDataHandle createGmshDataHandle() | |
| 238 | { | ||
| 239 | 4 | return GmshDataHandle(*gridPtr_, *gridInput_, elementMarkers_, boundaryMarkers_); | |
| 240 | } | ||
| 241 | |||
| 242 | // \} | ||
| 243 | |||
| 244 | /*! | ||
| 245 | * \name VTK interface functions | ||
| 246 | */ | ||
| 247 | // \{ | ||
| 248 | |||
| 249 | /*! | ||
| 250 | * \brief Get an element parameter | ||
| 251 | * \param element the element | ||
| 252 | * \param fieldName the name of the field to read from the vtk data | ||
| 253 | */ | ||
| 254 | 23795 | double getParameter(const Element& element, const std::string& fieldName) const | |
| 255 |
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23795 | { return getArrayParameter<double, 1>(element, fieldName)[0]; } |
| 256 | |||
| 257 | /*! | ||
| 258 | * \brief Get an element parameter that is an array | ||
| 259 | * \param element the element | ||
| 260 | * \param fieldName the name of the field to read from the vtk data | ||
| 261 | * \tparam T the parameter scalar type | ||
| 262 | * \tparam size the number of parameters in the array | ||
| 263 | */ | ||
| 264 | template<class T, std::size_t size> | ||
| 265 | 23795 | std::array<T, size> getArrayParameter(const Element& element, const std::string& fieldName) const | |
| 266 | { | ||
| 267 |
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23795 | if (dataSourceType_ != DataSourceType::vtk) |
| 268 | ✗ | DUNE_THROW(Dune::InvalidStateException, "This access function is only available for data from VTK files."); | |
| 269 | |||
| 270 | 23795 | if (cellData_.count(fieldName) == 0) | |
| 271 |
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23795 | DUNE_THROW(Dune::IOError, "No field with the name " << fieldName << " found in cell data."); |
| 272 | |||
| 273 | // parameters are only given for level 0 elements | ||
| 274 | 23795 | auto level0element = element; | |
| 275 |
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33971 | while (level0element.hasFather()) |
| 276 | 10176 | level0element = level0element.father(); | |
| 277 | |||
| 278 | // different index depending on whether we have communicated user data (parallel setting) or not (sequential setting) | ||
| 279 | 64433 | const auto index = [&]{ | |
| 280 |
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23795 | if (gridPtr_->comm().size() > 1) |
| 281 | 7632 | return gridPtr_->levelGridView(0).indexSet().index(level0element); | |
| 282 | else if (Detail::GridData::CartesianGrid<Grid>) | ||
| 283 | return gridPtr_->levelGridView(0).indexSet().index(level0element); | ||
| 284 | else | ||
| 285 | 16163 | return gridInput_->insertionIndex(level0element); | |
| 286 |
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23795 | }(); |
| 287 | |||
| 288 | std::array<T, size> param; | ||
| 289 |
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23795 | const auto& data = cellData_.at(fieldName); |
| 290 | |||
| 291 |
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23795 | if (const std::size_t nc = data.size()/gridPtr_->levelGridView(0).size(0); size != nc) |
| 292 | ✗ | DUNE_THROW(Dune::IOError, "Array size " << size << " does not match number of components of field " << nc); | |
| 293 | |||
| 294 |
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47590 | for (std::size_t i = 0; i < size; ++i) |
| 295 | 23795 | param[i] = static_cast<T>(data[i + size*index]); | |
| 296 | 23795 | return param; | |
| 297 | 15264 | } | |
| 298 | |||
| 299 | /*! | ||
| 300 | * \brief Call the parameters function of the DGF grid pointer if available for vertex data | ||
| 301 | * \param vertex the vertex | ||
| 302 | * \param fieldName the name of the field to read from the vtk data | ||
| 303 | * \note You can only pass vertices that exist on level 0! | ||
| 304 | */ | ||
| 305 | 53413 | double getParameter(const Vertex& vertex, const std::string& fieldName) const | |
| 306 |
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53413 | { return getArrayParameter<double, 1>(vertex, fieldName)[0]; } |
| 307 | |||
| 308 | /*! | ||
| 309 | * \brief Call the parameters function of the DGF grid pointer if available for vertex data | ||
| 310 | * \param vertex the vertex | ||
| 311 | * \param fieldName the name of the field to read from the vtk data | ||
| 312 | * \tparam T the parameter scalar type | ||
| 313 | * \tparam size the number of parameters in the array | ||
| 314 | * \note You can only pass vertices that exist on level 0 (otherwise: undefined behaviour). | ||
| 315 | */ | ||
| 316 | template<class T, std::size_t size> | ||
| 317 | 53413 | std::array<T, size> getArrayParameter(const Vertex& vertex, const std::string& fieldName) const | |
| 318 | { | ||
| 319 |
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53413 | if (dataSourceType_ != DataSourceType::vtk) |
| 320 |
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53413 | DUNE_THROW(Dune::InvalidStateException, "This access function is only available for data from VTK files."); |
| 321 | |||
| 322 |
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53413 | if (vertex.level() != 0) |
| 323 | ✗ | DUNE_THROW(Dune::IOError, "You can only obtain parameters for level 0 vertices!"); | |
| 324 | |||
| 325 | 53413 | if (pointData_.count(fieldName) == 0) | |
| 326 | ✗ | DUNE_THROW(Dune::IOError, "No field with the name " << fieldName << " found in point data"); | |
| 327 | |||
| 328 | // different index depending on whether we have communicated user data (parallel setting) or not (sequential setting) | ||
| 329 | 160239 | const auto index = [&]{ | |
| 330 |
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53413 | if (gridPtr_->comm().size() > 1) |
| 331 | 1398 | return gridPtr_->levelGridView(0).indexSet().index(vertex); | |
| 332 | else if (Detail::GridData::CartesianGrid<Grid>) | ||
| 333 | return gridPtr_->levelGridView(0).indexSet().index(vertex); | ||
| 334 | else | ||
| 335 | 52015 | return gridInput_->insertionIndex(vertex); | |
| 336 | 53413 | }(); | |
| 337 | |||
| 338 | std::array<T, size> param; | ||
| 339 | 53413 | const auto& data = pointData_.at(fieldName); | |
| 340 | |||
| 341 |
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53413 | if (const std::size_t nc = data.size()/gridPtr_->levelGridView(0).size(Grid::dimension); size != nc) |
| 342 | ✗ | DUNE_THROW(Dune::IOError, "Array size " << size << " does not match number of components of field " << nc); | |
| 343 | |||
| 344 |
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106826 | for (std::size_t i = 0; i < size; ++i) |
| 345 | 53413 | param[i] = static_cast<T>(data[i + size*index]); | |
| 346 | 53413 | return param; | |
| 347 | } | ||
| 348 | |||
| 349 | /*! | ||
| 350 | * \brief Create a data handle for communication of the data in parallel simulations via the grid | ||
| 351 | */ | ||
| 352 | 4 | VtkDataHandle createVtkDataHandle() | |
| 353 | { | ||
| 354 |
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4 | if (dataSourceType_ != DataSourceType::vtk) |
| 355 | ✗ | DUNE_THROW(Dune::InvalidStateException, "This access function is only available for data from VTK files."); | |
| 356 | |||
| 357 | 4 | return VtkDataHandle(*gridPtr_, *gridInput_, cellData_, pointData_); | |
| 358 | } | ||
| 359 | |||
| 360 | /*! | ||
| 361 | * \brief Communication of the data in parallel simulations for structured grid is done manually | ||
| 362 | */ | ||
| 363 | ✗ | void communicateStructuredVtkData() | |
| 364 | { | ||
| 365 | ✗ | if (dataSourceType_ != DataSourceType::vtk) | |
| 366 | ✗ | DUNE_THROW(Dune::InvalidStateException, "This access function is only available for data from VTK files."); | |
| 367 | |||
| 368 | ✗ | Detail::VtkData::communicateStructuredVtkData(*gridPtr_, *gridInput_, cellData_, pointData_); | |
| 369 | ✗ | } | |
| 370 | |||
| 371 | // \} | ||
| 372 | |||
| 373 | DataSourceType dataSourceType() const | ||
| 374 | { return dataSourceType_; } | ||
| 375 | |||
| 376 | private: | ||
| 377 | // grid and grid factor for gmsh grid data / vtk grid data | ||
| 378 | std::shared_ptr<Grid> gridPtr_; | ||
| 379 | std::shared_ptr<GridInput> gridInput_; | ||
| 380 | |||
| 381 | /*! | ||
| 382 | * \brief Element and boundary domain markers obtained from Gmsh physical entities | ||
| 383 | * They map from element indices / boundary ids to the physical entity number | ||
| 384 | */ | ||
| 385 | std::vector<int> elementMarkers_; | ||
| 386 | std::vector<int> boundaryMarkers_; | ||
| 387 | std::vector<int> faceMarkers_; | ||
| 388 | |||
| 389 | /*! | ||
| 390 | * \brief Cell and vertex data obtained from VTK files | ||
| 391 | */ | ||
| 392 | VTKReader::Data cellData_, pointData_; | ||
| 393 | |||
| 394 | // dgf grid data | ||
| 395 | Dune::GridPtr<Grid> dgfGrid_; | ||
| 396 | |||
| 397 | // specify which type of data we have | ||
| 398 | // TODO unfortunately all grid readers provide different data types, should be streamlined (changes in Dune) | ||
| 399 | DataSourceType dataSourceType_; | ||
| 400 | }; | ||
| 401 | |||
| 402 | } // namespace Dumux | ||
| 403 | |||
| 404 | #endif | ||
| 405 |