def _createPorousMediumFlowVelocityOutput(*, gridVariables):
"""Create a PorousMediumFlowVelocityOutput"""
includes = gridVariables._includes
includes += [
"dumux/python/porousmediumflow/velocityoutput.hh",
"dumux/io/velocityoutput.hh"
]
fluxVarsType = (
f"Dumux::GetPropType<{gridVariables.model.cppType}, Dumux::Properties::FluxVariables>"
)
typeName = f"Dumux::PorousMediumFlowVelocityOutput<{gridVariables._typeName}, {fluxVarsType}>"
moduleName = "porousmediumflowvelocityoutput_" + hashIt(typeName)
baseClass = [f"Dumux::VelocityOutput<{gridVariables._typeName}>"]
generator = SimpleGenerator("PorousMediumFlowVelocityOutput",
"Dumux::Python")
module = generator.load(
includes,
typeName,
moduleName,
holder="std::shared_ptr",
preamble=gridVariables.model.cppHeader,
baseClasses=baseClass,
)
return module.PorousMediumFlowVelocityOutput(gridVariables)
def skeleton(interfaceFunction, grid=None):
"""Return the skeleton representation of a discrete function on the interface grid.
Args:
interfaceFunction: The discrete function on the interface grid.
grid (Grid, optional): The bulk grid. Necessary, if wrapped.
Returns:
Skeleton representation of given interface function.
Note:
This function has to be restricted when evaluated on facets, e.g. using avg(skeleton).
"""
if grid == None:
grid = interfaceFunction.space.grid.hierarchicalGrid.bulkGrid
includes = ["dune/mmesh/misc/pyskeletontrace.hh"]
includes += interfaceFunction._includes + grid._includes
generator = SimpleGenerator("SkeletonGF", "Dune::Fem")
typeName = "Dune::Fem::SkeletonGF< " + grid._typeName + ", " + interfaceFunction._typeName + " >"
moduleName = "skeleton_" + hashlib.md5(typeName.encode('utf8')).hexdigest()
cls = generator.load(includes, typeName, moduleName)
skeleton = cls.SkeletonGF(grid, interfaceFunction)
import dune.ufl
skeleton = dune.ufl.GridFunction(skeleton)
interfaceFunction.skeleton = skeleton
return skeleton
def module(dim):
typeName = "Dune::Geo::ReferenceElement<Dune::Geo::ReferenceElementImplementation<double," + str(dim) + "> >"
includes = ["dune/python/geometry/referenceelements.hh"]
typeHash = "referenceelements_" + hashIt(typeName)
generator = SimpleGenerator("ReferenceElements", "Dune::Python")
m = generator.load(includes, typeName, typeHash)
return m
def PrintProblemTest(problem):
includes = problem._includes + ["test/python/test_boundaryloop.hh"]
typeName = "Dumux::Python::PrintProblemTest<{}>".format(problem._typeName)
moduleName = moduleName = "printbs_" + hashIt(problem._typeName)
generator = SimpleGenerator("PrintProblemTest", "Dumux::Python")
module = generator.load(includes, typeName, moduleName)
return module.PrintProblemTest(problem)
def _loadVec(includes, typeName, constructors=None, methods=None):
from dune.generator.generator import SimpleGenerator
from dune.common.hashit import hashIt
generator = SimpleGenerator("FieldVector", "Dune::Python")
includes = includes + ["dune/python/common/fvector.hh"]
typeHash = "fieldvector_" + hashIt(typeName)
return generator.load(includes,
typeName,
typeHash,
constructors,
methods,
bufferProtocol=True)
def _createComponent(name, *, scalar="double", componentId=0):
"""Create a new component of the given name"""
if name == "Constant":
typeName = f"Dumux::Components::{name} <{componentId}, {scalar}>"
else:
typeName = f"Dumux::Components::{name} <{scalar}>"
moduleName = f"{name.lower()}_{hashIt(typeName)}"
includes = ["dumux/python/material/components/component.hh"]
includes += [_components[name]]
generator = SimpleGenerator("Component", "Dumux::Python")
module = generator.load(includes, typeName, moduleName)
return module.Component()
def BoundaryTypes(numEq=1):
# only copmile this once per numEq
cacheKey = "BoundaryTypes_{}".format(numEq)
try:
return globals()[cacheKey]()
except KeyError:
includes = ["dumux/python/common/boundarytypes.hh"]
typeName = "Dumux::BoundaryTypes<{}>".format(numEq)
moduleName = "boundarytypes_" + hashIt(typeName)
generator = SimpleGenerator("BoundaryTypes", "Dumux::Python")
module = generator.load(includes, typeName, moduleName)
globals().update({cacheKey: module.BoundaryTypes})
return globals()[cacheKey]()
def _createVtkOutputModule(*, gridVariables, solutionVector, name):
"""Construct a VtkOutputModule"""
includes = gridVariables._includes + solutionVector._includes
includes += [
"dumux/python/io/vtkoutputmodule.hh", "dumux/io/vtkoutputmodule.hh"
]
typeName = f"Dumux::VtkOutputModule<{gridVariables._typeName}, {solutionVector._typeName}>"
moduleName = "vtkoutputmodule_" + hashIt(typeName)
generator = SimpleGenerator("VtkOutputModule", "Dumux::Python")
module = generator.load(includes,
typeName,
moduleName,
preamble=gridVariables.model.cppHeader)
return module.VtkOutputModule(gridVariables, solutionVector, name)
def _createBoundaryTypes(numEq=1):
"""Create BoundaryTypes instances"""
# only compile this once per numEq
cacheKey = f"BoundaryTypes_{numEq}"
try:
return globals()[cacheKey]()
except KeyError:
includes = ["dumux/python/common/boundarytypes.hh"]
typeName = f"Dumux::BoundaryTypes<{numEq}>"
moduleName = "boundarytypes_" + hashIt(typeName)
generator = SimpleGenerator("BoundaryTypes", "Dumux::Python")
module = generator.load(includes, typeName, moduleName)
globals().update({cacheKey: module.BoundaryTypes})
return globals()[cacheKey]()
def trace(bulkFunction, igrid=None):
"""Return the trace representation of a discrete function on the bulk grid.
Args:
bulkFunction: The discrete function on the bulk grid.
igrid (InterfaceGrid, optional): The interface grid.
Returns:
Trace representation of a given interface function.
This function has to be restricted to positive ('+') or negative side ('-').
"""
if igrid == None:
igrid = bulkFunction.space.grid.hierarchicalGrid.interfaceGrid
traces = {}
includes = ["dune/mmesh/misc/pyskeletontrace.hh"]
includes += bulkFunction._includes
generator = SimpleGenerator(["TraceGF","TraceGF"], "Dune::Fem", pythonname=["TraceGFP","TraceGFM"])
typeName = []
for side in [ "in", "out" ]:
sideStr = "Dune::Fem::IntersectionSide::" + side
typeName += ["Dune::Fem::TraceGF< " + igrid._typeName + ", " + bulkFunction._typeName + ", " + sideStr + " >"]
moduleName = "skeleton_"+hashlib.md5(''.join(typeName).encode('utf8')).hexdigest()
module = generator.load(includes, typeName, moduleName)
traces["in"] = module.TraceGFP(igrid, bulkFunction)
traces["out"] = module.TraceGFM(igrid, bulkFunction)
import ufl
import dune.ufl
trace_p = dune.ufl.GridFunction(traces["in"])
trace_m = dune.ufl.GridFunction(traces["out"])
if bulkFunction.scalar:
trace_p = trace_p.toVectorCoefficient()
trace_m = trace_m.toVectorCoefficient()
trace = trace_p
predefined = {}
predefined[trace('+')] = trace_p
predefined[trace('-')] = trace_m
predefined[ufl.grad(trace)('+')] = ufl.grad(trace_p)
predefined[ufl.grad(trace)('-')] = ufl.grad(trace_m)
predefined[ufl.grad(ufl.grad(trace))('+')] = ufl.grad(ufl.grad(trace_p))
predefined[ufl.grad(ufl.grad(trace))('-')] = ufl.grad(ufl.grad(trace_m))
trace.predefined = predefined
if bulkFunction.scalar:
trace = trace[0]
bulkFunction.trace = trace
return trace
def createModule(numEq):
priVarType = "Dune::FieldVector<double, {}>".format(numEq)
ggType = gridGeometry._typeName
problemType = "Dumux::Python::FVProblem<{}, {}>".format(
ggType, priVarType)
includes = gridGeometry._includes + [
"dumux/python/common/fvproblem.hh"
]
moduleName = "fvproblem_" + hashIt(problemType)
holderType = "std::shared_ptr<{}>".format(problemType)
generator = SimpleGenerator("FVProblem", "Dumux::Python")
module = generator.load(includes,
problemType,
moduleName,
options=[holderType])
return module
def createModule(numEq):
priVarType = f"Dune::FieldVector<double, {numEq}>"
ggType = gridGeometry._typeName
enableIntDirConstraint = "true" if enableInternalDirichletConstraints else "false"
problemType = f"Dumux::Python::FVProblem<{ggType}, {priVarType}, {enableIntDirConstraint}>"
includes = gridGeometry._includes + [
"dumux/python/common/fvproblem.hh"
]
moduleName = "fvproblem_" + hashIt(problemType)
holderType = f"std::shared_ptr<{problemType}>"
generator = SimpleGenerator("FVProblem", "Dumux::Python")
module = generator.load(includes,
problemType,
moduleName,
options=[holderType])
return module
def _createFVAssembler(*,
problem,
gridVariables,
model,
diffMethod="numeric",
isImplicit=True):
"""
Create an FVAssembler object
Args:
problem: A problem instance (boundary & initial conditions)
gridVariables: A grid variable instance (primary & secondary variables defined on a grid)
model: A DuMux model configuration instance
diffMethod (str): The method to compute derivatives of the residual (numeric or analytic)
isImplicit (bool): If the time discretization method is implicit or explicit
Returns:
An assembler object (Python-bindings of the corresponding C++ type)
Usage:
assembler = FVAssembler(
problem=problem, gridVariables=gridVars, model=model, diffMethod=diffMethod
)
"""
if diffMethod == "numeric":
cppDiffMethod = "Dumux::DiffMethod::numeric"
elif diffMethod == "analytic":
cppDiffMethod = "Dumux::DiffMethod::analytic"
else:
raise ValueError(f"Unknown diffMethod {diffMethod}")
assemblerType = f"Dumux::FVAssembler<{model.cppType}, {cppDiffMethod}, {int(isImplicit)}>"
includes = (problem._includes + problem.gridGeometry()._includes +
["dumux/assembly/fvassembler.hh"])
includes += ["dumux/python/assembly/fvassembler.hh"]
moduleName = "fvassembler_" + hashIt(assemblerType)
generator = SimpleGenerator("FVAssembler", "Dumux::Python")
module = generator.load(
includes,
assemblerType,
moduleName,
holder="std::shared_ptr",
preamble=model.cppHeader,
)
return module.FVAssembler(problem, problem.gridGeometry(), gridVariables)
def createModule(numEq):
priVars = f"Dune::FieldVector<double, {numEq}>"
ggType = gridGeometry._typeName
spType = spatialParams._typeName
enableIDC = "true" if enableInternalDirichletConstraints else "false"
problemType = ("Dumux::Python::PorousMediumFlowProblem"
f"<{ggType}, {priVars}, {spType}, {enableIDC}>")
includes = [
*(gridGeometry._includes),
*(spatialParams._includes),
*["dumux/python/porousmediumflow/problem.hh"],
]
moduleName = "fvproblem_" + hashIt(problemType)
generator = SimpleGenerator("PorousMediumFlowProblem", "Dumux::Python")
module = generator.load(includes,
problemType,
moduleName,
holder="std::shared_ptr")
return module
def decorateOnePSpatialParams(cls):
generator = SimpleGenerator("OnePSpatialParams", "Dumux::Python")
module = generator.load(includes,
typeName,
moduleName,
holder="std::shared_ptr")
def maybeConvertScalarToMatrix(permeabilityValue):
if isinstance(permeabilityValue, float):
matrix = np.zeros(shape=(dim, dim))
np.fill_diagonal(matrix, permeabilityValue)
return matrix.tolist()
return permeabilityValue
class Permeability:
"""Permeability decorator to make sure permeability has correct type"""
def __init__(self, permeabilityFunction):
self.permeabilityFunction = permeabilityFunction
def __call__(self, element, scv, elemSol):
result = self.permeabilityFunction(element, scv, elemSol)
return maybeConvertScalarToMatrix(result)
class PermeabilityAtPos:
"""PermeabilityAtPos decorator to make sure permeability has correct type"""
def __init__(self, permeabilityFunction):
self.permeabilityFunction = permeabilityFunction
def __call__(self, globalPos):
result = self.permeabilityFunction(globalPos)
return maybeConvertScalarToMatrix(result)
def createSpatialParams():
spatialParams = cls()
if hasattr(cls, "permeability"):
cls.permeability = Permeability(spatialParams.permeability)
if hasattr(cls, "permeabilityAtPos"):
cls.permeabilityAtPos = PermeabilityAtPos(
spatialParams.permeabilityAtPos)
return module.OnePSpatialParams(gridGeometry, spatialParams)
return createSpatialParams
def _createGridGeometry(gridView, discMethod="cctpfa"):
"""Construct a GridGeometry from a gridView"""
includes = gridView._includes + ["dumux/python/discretization/gridgeometry.hh"]
if discMethod == "cctpfa":
includes += ["dumux/discretization/cellcentered/tpfa/fvgridgeometry.hh"]
typeName = "Dumux::CCTpfaFVGridGeometry<" + gridView._typeName + ">"
elif discMethod == "box":
includes += ["dumux/discretization/box/fvgridgeometry.hh"]
typeName = "Dumux::BoxFVGridGeometry<double, " + gridView._typeName + ">"
else:
raise ValueError(f"Unknown discMethod {discMethod}")
moduleName = "gridgeometry_" + hashIt(typeName)
holderType = f"std::shared_ptr<{typeName}>"
generator = SimpleGenerator("GridGeometry", "Dumux::Python")
module = generator.load(includes, typeName, moduleName, options=[holderType])
return module.GridGeometry(gridView)
def _createGridVariables(*, problem, model):
"""Construct a GridGeometry from problem and the model"""
includes = [
"dumux/discretization/fvgridvariables.hh",
"dumux/python/discretization/gridvariables.hh",
]
ggeo = f"Dumux::GetPropType<{model.cppType}, Dumux::Properties::GridGeometry>"
gvv = f"Dumux::GetPropType<{model.cppType}, Dumux::Properties::GridVolumeVariables>"
gfc = f"Dumux::GetPropType<{model.cppType}, Dumux::Properties::GridFluxVariablesCache>"
typeName = f"Dumux::FVGridVariables<{ggeo}, {gvv}, {gfc}>"
moduleName = "gridvariables_" + hashIt(typeName)
holderType = f"std::shared_ptr<{typeName}>"
generator = SimpleGenerator("GridVariables", "Dumux::Python")
module = generator.load(
includes, typeName, moduleName, options=[holderType], preamble=model.cppHeader
)
module.GridVariables.model = property(lambda self: model)
return module.GridVariables(problem, problem.gridGeometry())
def _createFluidSystem(name, *, component, scalar: Property = None):
"""Construct a FluidSystem"""
includes = component._includes + [
"dumux/python/material/fluidsystems/fluidsystem.hh"
]
if scalar is None:
scalar = Property.fromCppType("double")
scalarType = scalar.cppType
availableFluidSystems = {
"OnePLiquid": {
"includes": ["dumux/material/fluidsystems/1pliquid.hh"],
"type":
f"Dumux::FluidSystems::OnePLiquid<{scalarType}, {component._typeName}>",
},
"OnePGas": {
"includes": ["dumux/material/fluidsystems/1pgas.hh"],
"type":
f"Dumux::FluidSystems::OnePGas<{scalarType}, {component._typeName}>",
},
}
if name not in availableFluidSystems:
raise NotImplementedError("FluidSystem of type " + name +
" not implemented.\n"
"Available types are " +
", ".join(availableFluidSystems.keys()))
includes += availableFluidSystems[name]["includes"]
typeName = availableFluidSystems[name]["type"]
moduleName = "fluidsystem_" + hashIt(typeName)
generator = SimpleGenerator("FluidSystem", "Dumux::Python")
module = generator.load(includes, typeName, moduleName)
return module.FluidSystem()
import dune.common
from ._istl import BCRSMatrix as BCRSMatrix11
from ._istl import BlockVector as BlockVector1
from ._istl import *
from dune.generator.generator import SimpleGenerator
from dune.common.hashit import hashIt
generator = SimpleGenerator("BCRSMatrix", "Dune::Python")
generatorvec = SimpleGenerator("BlockVector", "Dune::Python")
generatormatrixindexset = SimpleGenerator("MatrixIndexSet", "Dune::Python")
def load(includes, typeName, constructors=None, methods=None):
includes = includes + ["dune/python/istl/bcrsmatrix.hh"]
typeHash = "istlbcrsmatrix_" + hashIt(typeName)
return generator.load(includes, typeName, typeHash, constructors, methods)
def loadvec(includes, typeName, constructors=None, methods=None):
includes = includes + [
"dune/python/common/fvector.hh", "dune/python/istl/bvector.hh"
]
typeHash = "istlbvector_" + hashIt(typeName)
return generatorvec.load(includes, typeName, typeHash, constructors,
methods)
def loadmatrixindexset(includes, typeName, constructors=None, methods=None):
includes = includes + ["dune/python/istl/matrixindexset.hh"]
typeHash = "matrixindexset_" + hashIt(typeName)
info = scheme._solve(target)
else:
info = scheme._solve(rhs, target)
return target,info
def solve( scheme, target=None, rhs=None, name=None ):
if target==None:
return depSolve( scheme, target, rhs, name )
else:
if rhs is None:
return scheme._solve(target)
else:
return scheme._solve(rhs, target)
generator = SimpleGenerator("Scheme", "Dune::FemPy")
def addAttr(module, cls):
setattr(cls, "solve", solve)
fileBase = "femscheme"
def module(includes, typeName, *args, backend=None):
from dune.fem.space import addBackend
includes = includes + ["dune/fempy/py/scheme.hh"]
moduleName = fileBase + "_" + hashlib.md5(typeName.encode('utf-8')).hexdigest()
module = generator.load(includes, typeName, moduleName, *args, dynamicAttr=True)
addAttr(module, module.Scheme)
JacobianOperator = getattr(module.Scheme,"JacobianOperator",None)
if JacobianOperator is not None and hasattr(JacobianOperator,"_backend") and backend is not None:
addBackend(JacobianOperator,backend)
from dune.generator.generator import SimpleGenerator
from dune.common.hashit import hashIt
generator = SimpleGenerator("DataHandle", "Dune::Python")
def load(includes, typeName, *args):
includes = includes + ["dune/python/common/numpycommdatahandle.hh"]
moduleName = "numpycommdatahandle_" + hashIt(typeName)
return generator.load(includes, typeName, moduleName, *args)
def dataHandle(mapper, array, function):
typeName = "Dune::Python::NumPyCommDataHandle< " + mapper._typeName + ", double, std::function<double(double,double)> >"
includes = mapper._includes
return load(includes, typeName).DataHandle(mapper, array, function)
from __future__ import absolute_import, division, print_function, unicode_literals
__metaclass__ = type
import hashlib, warnings
try:
import ufl
from dune.ufl import GridFunction, expression2GF
from ufl.algorithms.analysis import extract_arguments_and_coefficients
except ImportError:
ufl = None
from dune.generator.generator import SimpleGenerator
generator = SimpleGenerator("GridAdaptation", "Dune::FemPy")
modules = {}
import logging, traceback
logger = logging.getLogger(__name__)
def module(grid):
try:
return modules[grid.cppTypeName]
except KeyError:
pass
typeName = "Dune::FemPy::GridAdaptation< " + grid.cppTypeName + " >"
includes = grid.cppIncludes + ["dune/fempy/py/grid/adaptation.hh"]
moduleName = "adapt_" + hashlib.md5(typeName.encode('utf8')).hexdigest()
from dune.generator.generator import SimpleGenerator
from dune.common.hashit import hashIt
from dune.common.checkconfiguration import assertHave, ConfigurationError
from .globalbasis import defaultGlobalBasis
from .tree import *
registry = dict()
registry["globalBasis"] = {"default": defaultGlobalBasis}
generator = SimpleGenerator("GlobalBasis", "Dune::Python")
def load(includes, typeName, *args):
includes = includes + ["dune/python/functions/globalbasis.hh"]
moduleName = "globalbasis_" + hashIt(typeName)
module = generator.load(includes, typeName, moduleName, *args)
return module
import hashlib
import sys
import logging
logger = logging.getLogger(__name__)
from dune.generator import Constructor, Method
from dune.generator.generator import SimpleGenerator
from dune.generator.generator import SimpleGenerator
from dune.fem.operator import load
generator = SimpleGenerator("Operator", "Dune::FemPy")
# limiter can be ScalingLimiter or FV based limiter with FV type reconstructions for troubled cells
def createLimiter(domainSpace,
rangeSpace=None,
bounds=[1e-12, 1.],
limiter='scaling'):
if rangeSpace is None:
rangeSpace = domainSpace
domainSpaceType = domainSpace._typeName
rangeSpaceType = rangeSpace._typeName
_, domainFunctionIncludes, domainFunctionType, _, _, _ = domainSpace.storage
_, rangeFunctionIncludes, rangeFunctionType, _, _, _ = rangeSpace.storage
includes = ["dune/fem-dg/operator/limiter/limiter.hh"]
includes += domainSpace._includes + domainFunctionIncludes
includes += rangeSpace._includes + rangeFunctionIncludes
"""
.. module:: _grids
"""
from __future__ import absolute_import, division, print_function, unicode_literals
import sys
import logging
logger = logging.getLogger(__name__)
from dune.common.checkconfiguration import assertHave, ConfigurationError
from dune.generator.generator import SimpleGenerator
from dune.common.hashit import hashIt
mmGenerator = SimpleGenerator("HierarchicalGrid", "Dune::Python::MMGrid")
mmifGenerator = SimpleGenerator("HierarchicalGrid", "Dune::Python::MMIFGrid")
def mmesh(constructor, dimgrid=None, **parameters):
"""Create an MMesh grid.
Args:
constructor: Grid constructor, e.g. (dune.grid.reader.gmsh, 'grid.msh').
dimgrid (int, optional): The world dimension (must be 2 or 3). Might be guessed by constructor.
**parameters: Additional parameters.
Returns:
An MMesh grid instance.
Examples:
Creating simple structured grid::
def backend_(self):
try:
return self._backend
except:
pass
try:
import numpy as np
return np.array(self.dofVector, copy=False)
except:
pass
return None
setattr(Df, backend, property(backend_))
generator = SimpleGenerator(["Space", "DiscreteFunction"], "Dune::FemPy")
def addAttr(module, self, field, scalar, codegen):
setattr(self, "_module", module)
setattr(self, "field", field)
setattr(self, "scalar", scalar)
setattr(self, "codegenStorage", codegen)
setattr(self, "interpolate",
lambda *args, **kwargs: interpolate(self, *args, **kwargs))
setattr(
self, "codegen",
lambda moduleName, interiorQuadratureOrders, skeletonQuadratureOrders:
_codegen(self, moduleName, interiorQuadratureOrders,
skeletonQuadratureOrders))
from __future__ import absolute_import, division, print_function, unicode_literals
__metaclass__ = type
import hashlib
from dune.generator.generator import SimpleGenerator
generator = SimpleGenerator("SpaceAdaptation", "Dune::FemPy")
modules = {}
def module(space):
storage, dfIncludes, dfTypeName, _, _, _ = space.storage
try:
return modules[dfTypeName]
except KeyError:
pass
typeName = "Dune::FemPy::SpaceAdaptation< " + dfTypeName + " >"
includes = dfIncludes + ["dune/fempy/py/spaceadapt.hh"]
moduleName = "spaceadapt_" + hashlib.md5(
typeName.encode('utf8')).hexdigest()
module = generator.load(includes, typeName, moduleName)
modules[dfTypeName] = module
return module
def spaceAdapt(space, marker, dfList):
dfs = {}