1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 256 257 258 259 260 261 262 263 264 265 266 267 268 269 270 271 272 273 274 275 276 277 278 279 280 281 282 283 284 285 286 287 288 289 290 291 292 293 294 295 296 297 298 299 300 301 302 303 304 305 306 307 308 309 310 311 312 313 314 315 316 317 318 319 320 321 322 323 324 325 326 327 328 329 330 331 332 333 334 335 336 337 338 339 340 341 342 343 344 345 346 347 348 349 350 351 352 353 354 355 356 357 358 359 360 361 362 363 364 365 366 367 368 369 370 371 372 373 374 375
|
# SPDX-FileCopyrightText: Copyright © DUNE Project contributors, see file LICENSE.md in module root
# SPDX-License-Identifier: LicenseRef-GPL-2.0-only-with-DUNE-exception
from dune.typeregistry import generateTypeName
class CartesianDomain(tuple):
@staticmethod
def bndDomain(lower, upper, division, tol = 1e-4 ):
bnd = ""
lower = list(lower)
upper = list(upper)
dim = len(lower)
for i in range(dim):
# compute epsilon
eps = tol * abs(upper[i] - lower[i]) / division[i]
l = lower.copy()
u = upper.copy()
l[i] -= 1e2 * eps
u[i] = lower[i]
bnd += str(2*i+1) + " " + " ".join(str((x-eps)) for x in l) +\
" " + " ".join(str((x+eps)) for x in u) + "\n"
l = lower.copy()
u = upper.copy()
l[i] = upper[i]
u[i] = upper[i] + 1e2 * eps
bnd += str(2*i+2) + " " + " ".join(str(x-eps) for x in l) +\
" " + " ".join(str(x+eps) for x in u) + "\n"
return bnd
def __new__ (cls, lower,upper,division,boundary=True,**parameters):
from ._grid import reader
dgf = "DGF\n"
dgf += "INTERVAL\n"
dgf += " ".join([str(x) for x in lower]) + "\n"
dgf += " ".join([str(x) for x in upper]) + "\n"
dgf += " ".join([str(x) for x in division]) + "\n"
dgf += "#\n"
if boundary:
dgf += "BOUNDARYDOMAIN\n"
dgf += CartesianDomain.bndDomain(lower,upper, division)
dgf += "#\n"
dgf += "GRIDPARAMETER\n"
foundRefEdge = False
for key in parameters:
if key.lower() == 'refinementedge':
foundRefEdge = True
dgf += key + " " + str(parameters[key]) + "\n"
# set default value for refinementedge if not provided to avoid warning
if not foundRefEdge:
dgf += "REFINEMENTEDGE ARBITRARY\n"
# simplex grids built from interval blocks are bisection compatible
dgf += "BISECTIONCOMPATIBILITY 1\n"
dgf += "#\n"
try:
periodic = parameters["periodic"]
if any(periodic):
dim = len(lower)
# create identity matrix in comma separated rows
eye = ""
for i in range(dim):
for j in range(dim):
eye += " 1" if i == j else " 0"
eye += " + " if i == dim-1 else ", "
dgf += "PERIODICFACETRANSFORMATION\n"
for i,p in enumerate(periodic):
if p:
dgf += eye
dgf += " ".join([str(upper[i]-lower[i]) if i==j
else "0" for j in range(dim)])
dgf += "\n"
dgf += "#\n"
except KeyError:
pass
# print dgf file if verbosity was enabled
if "verbose" in parameters:
if parameters["verbose"]:
print(dgf)
return super(CartesianDomain, cls).__new__(cls,
tuple( (reader.dgfString, dgf) ) )
def __init__(self,lower,upper,division,boundary=True,**parameters):
self.dimgrid = len(lower)
self.lower = lower
self.upper = upper
self.division = division
self.param = parameters
self.boundaryWasSet = boundary
def dimgrid(self):
return self.dimgrid
def onedGrid(constructor):
from .grid_generator import module, getDimgrid
typeName = "Dune::OneDGrid"
includes = ["dune/grid/onedgrid.hh", "dune/grid/io/file/dgfparser/dgfoned.hh"]
gridModule = module(includes, typeName)
return gridModule.reader(constructor).leafView
def moduleYaspCoordinates(dim, ctype="double"):
moduleName = "yaspcoordinates_dim{dim}_ct{ct}".format(ct = ctype, dim = dim)
source = """
#include <dune/python/pybind11/pybind11.h>
#include <dune/python/pybind11/numpy.h>
#include <dune/python/pybind11/stl.h>
#include <dune/common/typelist.hh>
#include <dune/grid/yaspgrid/coordinates.hh>
#include <dune/python/common/typeregistry.hh>
#include <dune/python/common/fvector.hh>
using namespace Dune;
using namespace Dune::Python;
namespace py = pybind11;
template<typename T>
auto registerCoords(py::module module, std::string name)
{{
auto includes = IncludeFiles{{"dune/grid/yaspgrid/coordinates.hh"}};
std::string nspace("Dune::");
auto typeName = GenerateTypeName(nspace+name, MetaType<{ct}>(), "{dim}");
auto cls = insertClass<T>(module, name, typeName, includes);
if (cls.second)
{{
// cls.first.def("name", [name](const T & self)
cls.first.def_static("name", [name]() {{ return name; }});
cls.first.def_property_readonly_static("typeName", [typeName](py::object) {{ return typeName.name(); }});
cls.first.def_property_readonly_static("dimgrid", [](py::object) {{ return {dim}; }});
cls.first.def_property_readonly_static("numpy_ctype", [](py::object) {{ return py::dtype::of<{ct}>(); }});
cls.first.def_property_readonly_static("ctype", [](py::object) {{ return "{ct}"; }});
}}
return cls.first;
}}
PYBIND11_MODULE({moduleName}, module)
{{
// make sure FieldVector is known to pybind11
addToTypeRegistry<{ct}>(GenerateTypeName("{ct}"));
registerFieldVector<{ct},{dim}>(module);
// EquidistantCoordinates(const Dune::FieldVector<ct,dim>& upperRight, const std::array<int,dim>& s)
//py::class_<EquidistantCoordinates<{ct},{dim}>>(module, "EquidistantCoordinates")
registerCoords<EquidistantCoordinates<{ct},{dim}>>(module, "EquidistantCoordinates")
.def(py::init<Dune::FieldVector<{ct},{dim}>, std::array<int,{dim}>>());
// EquidistantOffsetCoordinates(const Dune::FieldVector<ct,dim>& lowerLeft, const Dune::FieldVector<ct,dim>& upperRight, const std::array<int,dim>& s)
registerCoords<EquidistantOffsetCoordinates<{ct},{dim}>>(module, "EquidistantOffsetCoordinates")
.def(py::init<Dune::FieldVector<{ct},{dim}>, Dune::FieldVector<{ct},{dim}>, std::array<int,{dim}>>());
//.def(py::init( [] (std::array<double,{dim}>, std::array<double,{dim}>, std::array<int,{dim}>) {{ return static_cast<EquidistantOffsetCoordinates<{ct},{dim}>*>(0); }} ));
// TensorProductCoordinates(const std::array<std::vector<ct>,dim>& c, const std::array<int,dim>& offset)
registerCoords<TensorProductCoordinates<{ct},{dim}>>(module, "TensorProductCoordinates")
.def(py::init<std::array<std::vector<{ct}>,{dim}>, std::array<int,{dim}>>());
}}
""".format(moduleName = moduleName, ct = ctype, dim = dim)
from dune.generator import builder
module = builder.load(moduleName, source, "yasp coordinates dim={dim} ctype={ct}".format(ct = ctype, dim = dim))
return module
def equidistantOffsetCoordinates(lowerleft, upperright, elements, ctype='double'):
import numpy as np
dim = len(elements)
mod = moduleYaspCoordinates(dim,ctype)
coords_ = mod.EquidistantOffsetCoordinates
# make sure we have float values
dtype = coords_.numpy_ctype
lowerleft = np.array(lowerleft, dtype=dtype)
upperright = np.array(upperright, dtype=dtype)
assert(len(lowerleft) == dim)
assert(len(upperright) == dim)
return coords_(lowerleft, upperright, elements)
def equidistantCoordinates(upperright, elements):
import numpy as np
dim = len(elements)
mod = moduleYaspCoordinates(dim,ctype)
coords_ = mod.EquidistantCoordinates
# make sure we have float values
dtype = coords_.numpy_ctype
upperright = np.array(upperright, dtype=dtype)
assert(len(upperright) == dim)
return coords_(upperright, elements)
def tensorProductCoordinates(coords, offset=None, ctype='double'):
import numpy as np
dim = len(coords)
mod = moduleYaspCoordinates(dim,ctype)
coords_ = mod.TensorProductCoordinates
if offset is None:
offset = [0,]*dim
if len(offset) != dim:
raise ValueError("tensorProductCoordinates: offset parameter has wrong size")
dtype = coords_.numpy_ctype
## to get the right dtype we use
coords = [ np.array(c,dtype=dtype) for c in coords]
return coords_(coords,offset)
def yaspGrid(constructor, dimgrid=None, coordinates="equidistant", ctype=None,
periodic=None, overlap=None, **param):
"""create a Dune::YaspGrid
constructor: a Yaspgrod coordinates object
(created via equidistantCoordinates,
equidistantOffsetCoordinates or
tensorProductCoordinates)
or CartesianDomain
or a reader object that can be called via gridModule.reader(constructor)
dimgrid: explicitly specify the dimension of the grid (should only be set if using a reader)
coordinates: explicitly specify coordinates template parameter (deprecated, and ignored)
ctype: explicitly specify grids C++ ctype template parameter (should only be set if using a reader, default: double)
periodic: boolean list specifying periodicity per dimension (default: no periodicity)
overlap: size of overlap for periodic or parallel grids (default: 1)
parameters coordinates and ctype are deprecated and will in future
be deduced from the constructor parameter.
"""
from dune.generator import Constructor
from .grid_generator import module, getDimgrid
# we have to keep track whether we create the grid via a constructor call or via a reader
useReader = False
#### we try to guess what kind of "constructor" we are using now
# CartesianDomain
if isinstance(constructor, CartesianDomain):
# retrieve parameters from constructor.param, explicit parameters take precedence
ctype_ = constructor.param.get("ctype", ctype)
if not ctype:
ctype = ctype_
else:
if ctype != ctype_:
print("WARNING: yaspGrid: ctype Parameter of CartesianDomain overwritten by explicit parameter")
if not ctype:
ctype = "double" # default is double
# ---
periodic_ = constructor.param.get("periodic", periodic)
if not periodic:
periodic = periodic_ # if periodic is not gieven on the command line, we use the parameter from CartesianDomain
else:
if periodic != periodic_:
print("WARNING: yaspGrid: periodic Parameter of CartesianDomain overwritten by explicit parameter")
# ---
overlap_ = constructor.param.get("overlap", overlap)
if not overlap:
overlap = overlap_ # if overlap is not gieven on the command line, we use the parameter from CartesianDomain
else:
if overlap != overlap_:
print("WARNING: yaspGrid: overlap Parameter of CartesianDomain overwritten by explicit parameter")
# ---
constructor = equidistantOffsetCoordinates(
lowerleft = constructor.lower,
upperright = constructor.upper,
elements = constructor.division,
ctype = ctype
)
from dune.grid import reader
# Coordinate object
if (not isinstance(constructor, tuple)):
dimgrid_ = getDimgrid(constructor)
if dimgrid:
if dimgrid != dimgrid_:
raise ValueError("yaspGrid: parameter dimgrid can only be specified, when using a reader")
else:
dimgrid = dimgrid_
if ctype:
if ctype != constructor.ctype:
raise ValueError("yaspGrid: ctype is specified via coordinate object and can not be overwritten")
ctype = constructor.ctype
coordinates_type = constructor.typeName
dimgrid = getDimgrid(constructor)
if periodic is None:
periodic = [False,]*dimgrid
if overlap is None:
overlap = 1
# Reader
elif isinstance(constructor, tuple) and isinstance(constructor[0], reader):
if not ctype:
ctype = "double"
if not dimgrid:
raise ValueError("yaspGrid: parameter dimgrid must be specified, when using a reader")
mod = moduleYaspCoordinates(dimgrid,ctype)
# reader only works with EquidistantOffsetCoordinates or EquidistantCoordinates
coords = mod.EquidistantOffsetCoordinates
coordinates_type = coords.typeName
useReader = True
# periodic and overlap are (if required) defined by the DGF reader
periodic = None
overlap = None
else:
raise ValueError("yaspGrid: unsupported constructor parameter " + str(constructor))
# compile YaspGrid for a given dimension & coordinate type
includes = ["dune/grid/yaspgrid.hh", "dune/grid/io/file/dgfparser/dgfyasp.hh"]
gridTypeName, _ = generateTypeName("Dune::YaspGrid", str(dimgrid), coordinates_type)
ctor = Constructor(
[ "const " + coordinates_type + "& coordinates",
'std::array<bool, '+str(dimgrid)+'> periodic',
'int overlap' ],
[ 'std::bitset<'+str(dimgrid)+'> periodic_;',
'for (int i=0;i<'+str(dimgrid)+';++i) periodic_.set(i,periodic[i]);',
'return new DuneType(coordinates,periodic_,overlap);' ],
[ '"coordinates"_a', '"periodic"_a', '"overlap"_a' ])
gridModule = module(includes, gridTypeName, ctor)
# read the grid either via reader or create it directly...
if useReader:
return gridModule.reader(constructor).leafView
else:
return gridModule.HierarchicalGrid(constructor,periodic,overlap).leafView
grid_registry = {
"OneD" : onedGrid,
"Yasp" : yaspGrid,
}
from dune.packagemetadata import getCMakeFlags
try:
if not getCMakeFlags()["HAVE_ALBERTA"]:
raise KeyError
def albertaGrid(constructor, dimgrid=None, dimworld=None):
from .grid_generator import module, getDimgrid
if not dimgrid:
dimgrid = getDimgrid(constructor)
if dimworld is None:
dimworld = dimgrid
typeName = "Dune::AlbertaGrid< " + str(dimgrid) + " >"
includes = ["dune/grid/albertagrid.hh", "dune/grid/albertagrid/dgfparser.hh"]
extraCMake = ["add_dune_alberta_flags(TARGET WORLDDIM {})".format(str(dimworld))]
gridModule = module(includes, typeName) # , extraCMake=extraCMake)
return gridModule.reader(constructor).leafView
except KeyError:
def albertaGrid(constructor, dimgrid=None, dimworld=None):
print("""
Alberta was not found during the configuration of dune-grid.
To use 'albertaGrid' install the alberta package first and then reinstall the dune-grid package.
""")
grid_registry["Alberta"] = albertaGrid
from dune.packagemetadata import getCMakeFlags
try:
if not getCMakeFlags()["HAVE_DUNE_UGGRID"]:
raise KeyError
def ugGrid(constructor, dimgrid=None, **parameters):
from .grid_generator import module, getDimgrid
if not dimgrid:
dimgrid = getDimgrid(constructor)
typeName = "Dune::UGGrid< " + str(dimgrid) + " >"
includes = ["dune/grid/uggrid.hh", "dune/grid/io/file/dgfparser/dgfug.hh"]
gridModule = module(includes, typeName)
return gridModule.reader(constructor).leafView
except KeyError:
def ugGrid(constructor, dimgrid=None, **parameters):
print("""
UGGrid was not found during the configuration of dune-grid.
To use 'ugGrid' install the dune-uggrid package first and then reinstall the dune-grid package.
""")
grid_registry["UG"] = ugGrid
if __name__ == "__main__":
import doctest
|