def test_is_mesh_connectivity_required(self):
solver_interface = precice.Interface("test", "dummy.xml", 0, 1)
fake_bool = 0 # compare to output in test/SolverInterface.cpp
fake_mesh_id = 0
self.assertEqual(
fake_bool,
solver_interface.is_mesh_connectivity_required(fake_mesh_id))
def test_read_write_block_scalar_data_single_float(self):
solver_interface = precice.Interface("test", "dummy.xml", 0, 1)
write_data = 8
with self.assertRaises(TypeError):
solver_interface.write_block_scalar_data(1, 1, write_data)
with self.assertRaises(TypeError):
solver_interface.read_block_scalar_data(1, 1)
def test_get_data_id(self):
solver_interface = precice.Interface("test", "dummy.xml", 0, 1)
fake_mesh_id = 0 # compare to test/SolverInterface.cpp, fake_mesh_id
fake_data_name = "FakeData" # compare to test/SolverInterface.cpp, fake_data_name
fake_data_id = 15 # compare to test/SolverInterface.cpp, fake_data_ID
data_id = solver_interface.get_data_id(fake_data_name, fake_mesh_id)
self.assertTrue(data_id == fake_data_id)
def test_set_mesh_access_region(self):
solver_interface = precice.Interface("test", "dummy.xml", 0, 1)
fake_mesh_id = 0 # compare to test/SolverInterface.cpp, fake_mesh_id
fake_dimension = 3 # compare to test/SolverInterface.cpp, fake_dimensions
fake_bounding_box = np.arange(fake_dimension * 2)
solver_interface.set_mesh_access_region(fake_mesh_id,
fake_bounding_box)
def test_get_mesh_id(self):
solver_interface = precice.Interface("test", "dummy.xml", 0, 1)
# TODO: it would be nice to be able to mock the output of the interface
# directly in the test, not in test/SolverInterface.hpp
fake_mesh_id = 0 # compare to test/SolverInterface.hpp, fake_mesh_id
actual_output = solver_interface.get_mesh_id("testMesh")
self.assertEqual(fake_mesh_id, actual_output)
def test_set_mesh_vertex_tuple(self):
solver_interface = precice.Interface("test", "dummy.xml", 0, 1)
fake_mesh_id = 0 # compare to test/SolverInterface.cpp, fake_mesh_id
fake_dimension = 3 # compare to test/SolverInterface.cpp, fake_dimensions
position = tuple(np.random.rand(fake_dimension))
vertex_id = solver_interface.set_mesh_vertex(fake_mesh_id, position)
self.assertTrue(0 == vertex_id)
def test_read_write_block_vector_data_mixed(self):
solver_interface = precice.Interface("test", "dummy.xml", 0, 1)
write_data = [(3, 7, 8), (7, 6, 5)]
solver_interface.write_block_vector_data(1, np.array([1, 2]),
write_data)
read_data = solver_interface.read_block_vector_data(
1, np.array([1, 2]))
self.assertTrue(np.array_equal(write_data, read_data))
def test_read_write_block_vector_data(self):
solver_interface = precice.Interface("test", "dummy.xml", 0, 1)
write_data = np.array([[3, 7, 8], [7, 6, 5]], dtype=np.double)
solver_interface.write_block_vector_data(1, np.array([1, 2]),
write_data)
read_data = solver_interface.read_block_vector_data(
1, np.array([1, 2]))
self.assertTrue(np.array_equal(write_data, read_data))
def test_get_dimensions(self):
solver_interface = precice.Interface("test", "dummy.xml", 0, 1)
# TODO: it would be nice to be able to mock the output of the interface
# directly in the test, not in test/SolverInterface.hpp
fake_dimension = 3 # compare to test/SolverInterface.hpp, fake_dimensions
# TODO: it would be nice to be able to mock the output of the interface
# directly in the test, not in test/SolverInterface.hpp
self.assertEqual(fake_dimension, solver_interface.get_dimensions())
def test_set_mesh_vertices_empty_list(self):
solver_interface = precice.Interface("test", "dummy.xml", 0, 1)
fake_mesh_id = 0 # compare to test/SolverInterface.cpp, fake_mesh_id
positions = []
n_fake_vertices = 0
expected_output = np.array(range(n_fake_vertices))
actual_output = solver_interface.set_mesh_vertices(
fake_mesh_id, positions)
self.assertTrue(np.array_equal(expected_output, actual_output))
def test_get_mesh_vertex_ids_from_positions(self):
solver_interface = precice.Interface("test", "dummy.xml", 0, 1)
fake_mesh_id = 0 # compare to test/SolverInterface.cpp, fake_mesh_id
fake_dimension = 3 # compare to test/SolverInterface.cpp, fake_dimensions
n_fake_vertices = 3 # compare to test/SolverInterface.cpp, n_fake_vertices
positions = np.random.rand(n_fake_vertices, fake_dimension)
fake_vertex_ids = range(n_fake_vertices)
vertex_ids = solver_interface.get_mesh_vertex_ids_from_positions(
fake_mesh_id, positions)
self.assertTrue(np.array_equal(fake_vertex_ids, vertex_ids))
def test_set_mesh_vertices(self):
solver_interface = precice.Interface("test", "dummy.xml", 0, 1)
fake_mesh_id = 0 # compare to test/SolverInterface.cpp, fake_mesh_id
fake_dimension = 3 # compare to test/SolverInterface.cpp, fake_dimensions
n_fake_vertices = 3 # compare to test/SolverInterface.cpp, n_fake_vertices
positions = np.random.rand(n_fake_vertices, fake_dimension)
expected_output = np.array(range(n_fake_vertices))
actual_output = solver_interface.set_mesh_vertices(
fake_mesh_id, positions)
self.assertTrue(np.array_equal(expected_output, actual_output))
def __init__(self,
adapter_config_filename='precice-adapter-config.json',
interpolation_strategy=GeneralInterpolationExpression):
self._config = Config(adapter_config_filename)
self._solver_name = self._config.get_solver_name()
self._interface = precice.Interface(self._solver_name, 0, 1)
self._interface.configure(self._config.get_config_file_name())
self._dimensions = self._interface.get_dimensions()
self._coupling_subdomain = None # initialized later
self._mesh_fenics = None # initialized later
self._coupling_bc_expression = None # initialized later
self._fenics_dimensions = None # initialized later
# coupling mesh related quantities
self._coupling_mesh_vertices = None # initialized later
self._mesh_name = self._config.get_coupling_mesh_name()
self._mesh_id = self._interface.get_mesh_id(self._mesh_name)
self._vertex_ids = None # initialized later
self._n_vertices = None # initialized later
# write data related quantities (write data is written by this solver to preCICE)
self._write_data_name = self._config.get_write_data_name()
self._write_data_id = self._interface.get_data_id(
self._write_data_name, self._mesh_id)
self._write_data = None # a numpy 1D array with the values like it is used by precice (The 2D-format of values is (d0x, d0y, d1x, d1y, ..., dnx, dny) The 3D-format of values is (d0x, d0y, d0z, d1x, d1y, d1z, ..., dnx, dny, dnz))
self._write_function_type = None # stores whether write function is scalar or vector valued
# read data related quantities (read data is read by this solver from preCICE)
self._read_data_name = self._config.get_read_data_name()
self._read_data_id = self._interface.get_data_id(
self._read_data_name, self._mesh_id)
self._read_data = None # a numpy 1D array with the values like it is used by precice (The 2D-format of values is (d0x, d0y, d1x, d1y, ..., dnx, dny) The 3D-format of values is (d0x, d0y, d0z, d1x, d1y, d1z, ..., dnx, dny, dnz))
self._read_function_type = None # stores whether read function is scalar or vector valued
# numerics
self._precice_tau = None
self._my_expression = interpolation_strategy
# checkpointing
self._u_cp = None # checkpoint for temperature inside domain
self._t_cp = None # time of the checkpoint
self._n_cp = None # timestep of the checkpoint
# function space
self._function_space = None
self._dss = None # measure for boundary integral
# Nodes with Dirichlet and Force-boundary
self._Dirichlet_Boundary = None # stores a dirichlet boundary (if provided)
self._has_force_boundary = None # stores whether force_boundary exists
def __init__(self, mbdHelper, configFileName="../precice-config.xml"):
self.mbd = mbdHelper
self.interface = precice.Interface("Structure_Solver", configFileName,
0, 1) # proc no, nprocs
self.dim = self.interface.get_dimensions()
nodes = self.mbd.getNodes()
# if self.dim == 2:
# self.nodesid = np.where(nodes[:,2] < 1e-6)
# nodes = nodes[self.nodesid]
self.nnodes = len(nodes)
nmeshID = self.interface.get_mesh_id("Structure_Nodes")
self.nodeVertexIDs = self.nnodes * [0.0]
#self.interface.set_mesh_vertices(nmeshID, self.nnodes, np.ravel(nodes[:,:self.dim]), self.nodeVertexIDs)
#self.interface.set_mesh_vertices(nmeshID, np.ravel(nodes[:,:self.dim]))
self.interface.set_mesh_vertices(nmeshID,
np.array(nodes[:, :self.dim]))
#self.displacements = np.array(self.dim*self.nnodes*[0.0])
self.displacements = np.zeros((self.nnodes, self.dim))
# ccs = self.mbd.getCellCenters()
# self.ncells = len(ccs)
# cmeshID = self.interface.get_mesh_id("Structure_CellCenters")
# self.cellVertexIDs = self.ncells*[0.0]
# self.interface.set_mesh_vertices(cmeshID, self.ncells, np.ravel(ccs[:,:self.dim]), self.cellVertexIDs)
self.force = np.array(self.dim * self.nnodes * [0.0])
self.displacementsID = self.interface.get_data_id(
"DisplacementDelta", nmeshID)
self.forceID = self.interface.get_data_id("Force", nmeshID)
self.dt = self.interface.initialize()
self.mbd.controlDict["timeStep"] = self.dt
self.mbd.initializeMBDyn()
#import ipdb; ipdb.set_trace()
if (self.interface.is_action_required(
precice.action_write_initial_data())):
print("Writing initial data")
self.interface.write_block_vector_data(self.displacementsID,
self.nodeVertexIDs,
self.displacements)
self.interface.mark_action_fulfilled(
precice.action_write_initial_data())
self.interface.initialize_data()
if (self.interface.is_read_data_available()):
print("Reading initial data")
self.force = self.interface.read_block_vector_data(
self.forceID, self.nodeVertexIDs)
print(4)
def test_get_mesh_vertex_ids_from_positions_mixed(self):
solver_interface = precice.Interface("test", "dummy.xml", 0, 1)
fake_mesh_id = 0 # compare to test/SolverInterface.cpp, fake_mesh_id
fake_dimension = 3 # compare to test/SolverInterface.cpp, fake_dimensions
n_fake_vertices = 3 # compare to test/SolverInterface.cpp, n_fake_vertices
positions = np.random.rand(n_fake_vertices, fake_dimension)
positions = list(
tuple(positions[i, j] for j in range(positions.shape[1]))
for i in range(positions.shape[0]))
fake_vertex_ids = range(n_fake_vertices)
vertex_ids = solver_interface.get_mesh_vertex_ids_from_positions(
fake_mesh_id, positions)
self.assertTrue(np.array_equal(fake_vertex_ids, vertex_ids))
def test_get_mesh_vertices(self):
solver_interface = precice.Interface("test", "dummy.xml", 0, 1)
fake_mesh_id = 0 # compare to test/SolverInterface.cpp, fake_mesh_id
n_fake_vertices = 3 # compare to test/SolverInterface.cpp, n_fake_vertices
fake_dimension = 3 # compare to test/SolverInterface.cpp, fake_dimensions
fake_vertices = np.zeros((n_fake_vertices, fake_dimension))
for i in range(n_fake_vertices):
fake_vertices[i, 0] = i
fake_vertices[i, 1] = i + n_fake_vertices
fake_vertices[i, 2] = i + 2 * n_fake_vertices
vertices = solver_interface.get_mesh_vertices(fake_mesh_id,
range(n_fake_vertices))
self.assertTrue(np.array_equal(fake_vertices, vertices))
def test_read_write_vector_data_non_contiguous(self):
"""
Tests behaviour of solver interface, if a non contiguous array is passed to the interface.
Note: Check whether np.ndarray is contiguous via np.ndarray.flags.
"""
solver_interface = precice.Interface("test", "dummy.xml", 0, 1)
dummy_array = np.random.rand(3, 3)
write_data = dummy_array[:, 1]
assert (write_data.flags["C_CONTIGUOUS"] is False)
solver_interface.write_vector_data(1, 1, write_data)
read_data = solver_interface.read_vector_data(1, 1)
self.assertTrue(np.array_equal(write_data, read_data))
def test_get_mesh_vertices_and_ids(self):
solver_interface = precice.Interface("test", "dummy.xml", 0, 1)
fake_mesh_id = 0 # compare to test/SolverInterface.cpp, fake_mesh_id
n_fake_vertices = 3 # compare to test/SolverInterface.cpp, n_fake_vertices
fake_dimension = 3 # compare to test/SolverInterface.cpp, fake_dimensions
vertex_ids = np.arange(n_fake_vertices)
coordinates = np.zeros((n_fake_vertices, fake_dimension))
for i in range(n_fake_vertices):
coordinates[i, 0] = i * fake_dimension
coordinates[i, 1] = i * fake_dimension + 1
coordinates[i, 2] = i * fake_dimension + 2
fake_ids, fake_coordinates = solver_interface.get_mesh_vertices_and_ids(
fake_mesh_id)
self.assertTrue(np.array_equal(fake_ids, vertex_ids))
self.assertTrue(np.array_equal(fake_coordinates, coordinates))
def __init__(self, adapter_config_filename='precice-adapter-config.json'):
self._config = Config(adapter_config_filename)
self._solver_name = self._config.get_solver_name()
self._interface = precice.Interface(self._solver_name, 0, 1)
self._interface.configure(
self._config.get_config_file_name()) # raises error
self._dimensions = self._interface.get_dimensions()
self._coupling_subdomain = None # initialized later
self._mesh_fenics = None # initialized later
self._coupling_bc_expression = None # initialized later
self._fenics_dimensions = None # initialized later
self._vector_function = None # initialized later
## coupling mesh related quantities
self._coupling_mesh_vertices = None # initialized later
self._mesh_name = self._config.get_coupling_mesh_name()
self._mesh_id = self._interface.get_mesh_id(self._mesh_name)
self._vertex_ids = None # initialized later
self._n_vertices = None # initialized later
## write data related quantities (write data is written by this solver to preCICE)
self._write_data_name = self._config.get_write_data_name()
self._write_data_id = self._interface.get_data_id(
self._write_data_name, self._mesh_id)
self._write_data = None #_write_data is a vector with the values like it is used by precice (The 2D-format of values is (d0x, d0y, d1x, d1y, ..., dnx, dny) The 3D-format of values is (d0x, d0y, d0z, d1x, d1y, d1z, ..., dnx, dny, dnz))
## read data related quantities (read data is read by this solver from preCICE)
self._read_data_name = self._config.get_read_data_name()
self._read_data_id = self._interface.get_data_id(
self._read_data_name, self._mesh_id)
self._read_data = None #a numpy 1D array with the values like it is used by precice (The 2D-format of values is (d0x, d0y, d1x, d1y, ..., dnx, dny) The 3D-format of values is (d0x, d0y, d0z, d1x, d1y, d1z, ..., dnx, dny, dnz))
## numerics
self._precice_tau = None
## checkpointing
self._u_cp = None # checkpoint for temperature inside domain
self._t_cp = None # time of the checkpoint
self._n_cp = None # timestep of the checkpoint
#function space
self._function_space = None
self.dss = None #intgration domain for evaluation an integral over the domain
def __init__(self,
preciceConfigFile,
participantName,
config,
MESH,
MODEL,
MAT,
isNonLinear=False):
self.interfaces = []
self.numInterfaces = len(config)
self.MESH = MESH
self.MODEL = MODEL
self.MAT = MAT
self.LOADS = []
self.isNonLinear = isNonLinear
self.participantName = participantName
self.preciceDt = -1
self.precice = precice.Interface(participantName, preciceConfigFile, 0,
1)
self.configure(config)
def __init__(self, adapter_config_filename='precice-adapter-config.json'):
self._config = Config(adapter_config_filename)
self._solver_name = self._config.get_solver_name()
self._interface = precice.Interface(self._solver_name, 0, 1)
self._interface.configure(self._config.get_config_file_name())
self._dimensions = self._interface.get_dimensions()
self._coupling_subdomain = None # initialized later
self._mesh_fenics = None # initialized later
self._coupling_bc_expression = None # initialized later
## coupling mesh related quantities
self._coupling_mesh_vertices = None # initialized later
self._mesh_name = self._config.get_coupling_mesh_name()
self._mesh_id = self._interface.get_mesh_id(self._mesh_name)
self._vertex_ids = None # initialized later
self._n_vertices = None # initialized later
## write data related quantities (write data is written by this solver to preCICE)
self._write_data_name = self._config.get_write_data_name()
self._write_data_id = self._interface.get_data_id(self._write_data_name, self._mesh_id)
self._write_data = None
## read data related quantities (read data is read by this solver from preCICE)
self._read_data_name = self._config.get_read_data_name()
self._read_data_id = self._interface.get_data_id(self._read_data_name, self._mesh_id)
self._read_data = None
## numerics
self._precice_tau = None
## checkpointing
self._u_cp = None # checkpoint for temperature inside domain
self._t_cp = None # time of the checkpoint
self._n_cp = None # timestep of the checkpoint
def __init__(self, adapter_config_filename='precice-adapter-config.json'):
self._config = Config(adapter_config_filename)
self._solver_name = self._config.get_solver_name()
self.comm = mpi_comm_world()
self.rank = MPI.rank(self.comm)
self.size = MPI.size(self.comm)
self._interface = precice.Interface(self._solver_name, self.rank,
self.size)
self._interface.configure(self._config.get_config_file_name())
self._dimensions = self._interface.get_dimensions()
self._coupling_subdomain = None # initialized later
self._V_fenics = None # initialized later
## coupling mesh related quantities
self._coupling_mesh_vertices = None # initialized later
self._mesh_name = self._config.get_coupling_mesh_name()
self._mesh_id = self._interface.get_mesh_id(self._mesh_name)
self._vertex_ids = None # initialized later
## write data related quantities (write data is written by this solver to preCICE)
self._write_data_name = self._config.get_write_data_name()
self._write_data_id = self._interface.get_data_id(
self._write_data_name, self._mesh_id)
self._write_data = None
## read data related quantities (read data is read by this solver from preCICE)
self._read_data_name = self._config.get_read_data_name()
self._read_data_id = self._interface.get_data_id(
self._read_data_name, self._mesh_id)
self._read_data = None
## numerics
self._precice_tau = None
args = parser.parse_args()
except SystemExit:
print("")
print("Usage: python ./solverdummy precice-config participant-name mesh-name")
quit()
configuration_file_name = args.configurationFileName
participant_name = args.participantName
mesh_name = args.meshName
n = 1
solver_process_index = 0
solver_process_size = 1
interface = precice.Interface(participant_name, configuration_file_name, MPI.COMM_WORLD.Get_rank(), MPI.COMM_WORLD.Get_size())
mesh_id = interface.get_mesh_id(mesh_name)
dimensions = interface.get_dimensions()
vertices = np.ones((n, dimensions)) * MPI.COMM_WORLD.Get_rank()
vertex_ids = interface.set_mesh_vertices(mesh_id, vertices)
dt = interface.initialize()
while interface.is_coupling_ongoing():
if interface.is_action_required(precice.action_write_iteration_checkpoint()):
print("DUMMY: Writing iteration checkpoint")
interface.mark_action_fulfilled(precice.action_write_iteration_checkpoint())
quit()
writeVideoToFile = True if args.write_video else False
print("Starting Fluid Solver...")
configFileName = args.configurationFileName
N = config.n_elem
dx = config.L / N # element length
print("N: " + str(N))
solverName = "FLUID"
print("Configure preCICE...")
interface = precice.Interface(solverName, configFileName, 0, 1)
print("preCICE configured...")
dimensions = interface.get_dimensions()
velocity = config.velocity_in(0) * np.ones(N + 1)
velocity_n = config.velocity_in(0) * np.ones(N + 1)
pressure = config.p0 * np.ones(N + 1)
pressure_n = config.p0 * np.ones(N + 1)
crossSectionLength = config.a0 * np.ones(N + 1)
crossSectionLength_n = config.a0 * np.ones(N + 1)
if plotting_mode == config.PlottingModes.VIDEO:
fig, ax = plt.subplots(1)
if writeVideoToFile:
FFMpegWriter = manimation.writers['imagemagick']
output_mode = config.OutputModes.VTK if args.write_vtk else config.OutputModes.OFF
writeVideoToFile = True if args.write_video else False
print("Starting Fluid Solver...")
configFileName = args.configurationFileName
N = config.n_elem
dx = config.L / N # element length
print("N: " + str(N))
solverName = "FLUID"
print("Configure preCICE...")
interface = precice.Interface(solverName, 0, 1)
interface.configure(configFileName)
print("preCICE configured...")
dimensions = interface.get_dimensions()
velocity = config.velocity_in(0) * np.ones(N+1)
velocity_n = config.velocity_in(0) * np.ones(N+1)
pressure = config.p0 * np.ones(N+1)
pressure_n = config.p0 * np.ones(N+1)
crossSectionLength = config.a0 * np.ones(N+1)
crossSectionLength_n = config.a0 * np.ones(N+1)
if plotting_mode == config.PlottingModes.VIDEO:
fig, ax = plt.subplots(1)
import numpy as np
import time
import precice
# preCICE setup
participant_name = "Dummy"
config_file_name = "precice-config.xml"
solver_process_index = 0
solver_process_size = 1
interface = precice.Interface(participant_name, config_file_name,
solver_process_index, solver_process_size)
mesh_name = "Dummy-Mesh"
mesh_id = interface.get_mesh_id(mesh_name)
lmbda_id = interface.get_data_id("Lmbda", mesh_id)
mu_id = interface.get_data_id("Mu", mesh_id)
gc_id = interface.get_data_id("Gc", mesh_id)
# define coupling mesh
L = 1e-3 # domain size in m
N = 100 # number of cells in each direction
axis = np.linspace(-L / 2, L / 2, N + 1) # coordinates along one axis
positions = np.transpose(
[np.tile(axis, len(axis)),
np.repeat(axis, len(axis))]) # mesh coordinates
vertex_ids = interface.set_mesh_vertices(mesh_id, positions)
precice_dt = interface.initialize() # pseudo timestep size handled by preCICE
step = 0
def main(inflow: 'inflow velocity' = 10,
viscosity: 'kinematic viscosity' = 1.0,
density: 'density' = 1.0,
theta=0.5,
timestepsize=0.01):
# mesh and geometry definition
grid_x_1 = numpy.linspace(-3, -1, 7)
grid_x_1 = grid_x_1[:-1]
grid_x_2 = numpy.linspace(-1, -0.3, 8)
grid_x_2 = grid_x_2[:-1]
grid_x_3 = numpy.linspace(-0.3, 0.3, 13)
grid_x_3 = grid_x_3[:-1]
grid_x_4 = numpy.linspace(0.3, 1, 8)
grid_x_4 = grid_x_4[:-1]
grid_x_5 = numpy.linspace(1, 3, 7)
grid_x = numpy.concatenate(
(grid_x_1, grid_x_2, grid_x_3, grid_x_4, grid_x_5), axis=None)
grid_y_1 = numpy.linspace(0, 1.5, 16)
grid_y_1 = grid_y_1[:-1]
grid_y_2 = numpy.linspace(1.5, 2, 4)
grid_y_2 = grid_y_2[:-1]
grid_y_3 = numpy.linspace(2, 4, 7)
grid_y = numpy.concatenate((grid_y_1, grid_y_2, grid_y_3), axis=None)
grid = [grid_x, grid_y]
topo, geom = mesh.rectilinear(grid)
domain = topo.withboundary(inflow='left', wall='top,bottom', outflow='right') - \
topo[18:20, :10].withboundary(flap='left,right,top')
# Nutils namespace
ns = function.Namespace()
# time approximations
# TR interpolation
ns._functions['t'] = lambda f: theta * f + (1 - theta) * subs0(f)
ns._functions_nargs['t'] = 1
# 1st order FD
ns._functions['δt'] = lambda f: (f - subs0(f)) / dt
ns._functions_nargs['δt'] = 1
# 2nd order FD
ns._functions['tt'] = lambda f: (1.5 * f - 2 * subs0(f) + 0.5 * subs00(f)
) / dt
ns._functions_nargs['tt'] = 1
# extrapolation for pressure
ns._functions['tp'] = lambda f: (1.5 * f - 0.5 * subs0(f))
ns._functions_nargs['tp'] = 1
ns.nu = viscosity
ns.rho = density
ns.uin = inflow
ns.x0 = geom # reference geometry
ns.dbasis = domain.basis('std', degree=1).vector(2)
ns.d_i = 'dbasis_ni ?meshdofs_n'
ns.umesh_i = 'dbasis_ni (1.5 ?meshdofs_n - 2 ?oldmeshdofs_n + 0.5 ?oldoldmeshdofs_n ) / ?dt'
ns.x_i = 'x0_i + d_i' # moving geometry
ns.ubasis, ns.pbasis = function.chain([
domain.basis('std', degree=2).vector(2),
domain.basis('std', degree=1),
])
ns.F_i = 'ubasis_ni ?F_n' # stress field
ns.urel_i = 'ubasis_ni ?lhs_n' # relative velocity
ns.u_i = 'umesh_i + urel_i' # total velocity
ns.p = 'pbasis_n ?lhs_n' # pressure
# initialization of dofs
meshdofs = numpy.zeros(len(ns.dbasis))
oldmeshdofs = meshdofs
oldoldmeshdofs = meshdofs
oldoldoldmeshdofs = meshdofs
lhs0 = numpy.zeros(len(ns.ubasis))
# for visualization
bezier = domain.sample('bezier', 2)
# preCICE setup
configFileName = "../precice-config.xml"
participantName = "Fluid"
solverProcessIndex = 0
solverProcessSize = 1
interface = precice.Interface(participantName, configFileName,
solverProcessIndex, solverProcessSize)
# define coupling meshes
meshName = "Fluid-Mesh"
meshID = interface.get_mesh_id(meshName)
couplinginterface = domain.boundary['flap']
couplingsample = couplinginterface.sample(
'gauss', degree=2) # mesh located at Gauss points
dataIndices = interface.set_mesh_vertices(meshID,
couplingsample.eval(ns.x0))
# coupling data
writeData = "Force"
readData = "Displacement"
writedataID = interface.get_data_id(writeData, meshID)
readdataID = interface.get_data_id(readData, meshID)
# initialize preCICE
precice_dt = interface.initialize()
dt = min(precice_dt, timestepsize)
# boundary conditions for fluid equations
sqr = domain.boundary['wall,flap'].integral('urel_k urel_k d:x0' @ ns,
degree=4)
cons = solver.optimize('lhs', sqr, droptol=1e-15)
sqr = domain.boundary['inflow'].integral(
'((urel_0 - uin)^2 + urel_1^2) d:x0' @ ns, degree=4)
cons = solver.optimize('lhs', sqr, droptol=1e-15, constrain=cons)
# weak form fluid equations
res = domain.integral('t(ubasis_ni,j (u_i,j + u_j,i) rho nu d:x)' @ ns,
degree=4)
res += domain.integral('(-ubasis_ni,j p δ_ij + pbasis_n u_k,k) d:x' @ ns,
degree=4)
res += domain.integral('rho ubasis_ni δt(u_i d:x)' @ ns, degree=4)
res += domain.integral('rho ubasis_ni t(u_i,j urel_j d:x)' @ ns, degree=4)
# weak form for force computation
resF = domain.integral('(ubasis_ni,j (u_i,j + u_j,i) rho nu d:x)' @ ns,
degree=4)
resF += domain.integral('tp(-ubasis_ni,j p δ_ij d:x)' @ ns, degree=4)
resF += domain.integral('pbasis_n u_k,k d:x' @ ns, degree=4)
resF += domain.integral('rho ubasis_ni tt(u_i d:x)' @ ns, degree=4)
resF += domain.integral('rho ubasis_ni (u_i,j urel_j d:x)' @ ns, degree=4)
resF += couplinginterface.sample('gauss',
4).integral('ubasis_ni F_i d:x' @ ns)
consF = numpy.isnan(
solver.optimize('F',
couplinginterface.sample('gauss',
4).integral('F_i F_i' @ ns),
droptol=1e-10))
# boundary conditions mesh displacements
sqr = domain.boundary['inflow,outflow,wall'].integral('d_i d_i' @ ns,
degree=2)
meshcons0 = solver.optimize('meshdofs', sqr, droptol=1e-15)
# weak form mesh displacements
meshsqr = domain.integral('d_i,x0_j d_i,x0_j d:x0' @ ns, degree=2)
# better initial guess: start from Stokes solution, comment out for comparison with other solvers
#res_stokes = domain.integral('(ubasis_ni,j ((u_i,j + u_j,i) rho nu - p δ_ij) + pbasis_n u_k,k) d:x' @ ns, degree=4)
#lhs0 = solver.solve_linear('lhs', res_stokes, constrain=cons, arguments=dict(meshdofs=meshdofs, oldmeshdofs=oldmeshdofs, oldoldmeshdofs=oldoldmeshdofs, oldoldoldmeshdofs=oldoldoldmeshdofs, dt=dt))
lhs00 = lhs0
timestep = 0
t = 0
while interface.is_coupling_ongoing():
# read displacements from interface
if interface.is_read_data_available():
readdata = interface.read_block_vector_data(
readdataID, dataIndices)
coupledata = couplingsample.asfunction(readdata)
sqr = couplingsample.integral(((ns.d - coupledata)**2).sum(0))
meshcons = solver.optimize('meshdofs',
sqr,
droptol=1e-15,
constrain=meshcons0)
meshdofs = solver.optimize('meshdofs', meshsqr, constrain=meshcons)
# save checkpoint
if interface.is_action_required(
precice.action_write_iteration_checkpoint()):
lhs_checkpoint = lhs0
lhs00_checkpoint = lhs00
t_checkpoint = t
timestep_checkpoint = timestep
oldmeshdofs_checkpoint = oldmeshdofs
oldoldmeshdofs_checkpoint = oldoldmeshdofs
oldoldoldmeshdofs_checkpoint = oldoldoldmeshdofs
interface.mark_action_fulfilled(
precice.action_write_iteration_checkpoint())
# solve fluid equations
lhs1 = solver.newton(
'lhs',
res,
lhs0=lhs0,
constrain=cons,
arguments=dict(
lhs0=lhs0,
dt=dt,
meshdofs=meshdofs,
oldmeshdofs=oldmeshdofs,
oldoldmeshdofs=oldoldmeshdofs,
oldoldoldmeshdofs=oldoldoldmeshdofs)).solve(tol=1e-6)
# write forces to interface
if interface.is_write_data_required(dt):
F = solver.solve_linear('F',
resF,
constrain=consF,
arguments=dict(
lhs00=lhs00,
lhs0=lhs0,
lhs=lhs1,
dt=dt,
meshdofs=meshdofs,
oldmeshdofs=oldmeshdofs,
oldoldmeshdofs=oldoldmeshdofs,
oldoldoldmeshdofs=oldoldoldmeshdofs))
# writedata = couplingsample.eval(ns.F, F=F) # for stresses
writedata = couplingsample.eval('F_i d:x' @ ns, F=F, meshdofs=meshdofs) * \
numpy.concatenate([p.weights for p in couplingsample.points])[:, numpy.newaxis]
interface.write_block_vector_data(writedataID, dataIndices,
writedata)
# do the coupling
precice_dt = interface.advance(dt)
dt = min(precice_dt, timestepsize)
# advance variables
timestep += 1
t += dt
lhs00 = lhs0
lhs0 = lhs1
oldoldoldmeshdofs = oldoldmeshdofs
oldoldmeshdofs = oldmeshdofs
oldmeshdofs = meshdofs
# read checkpoint if required
if interface.is_action_required(
precice.action_read_iteration_checkpoint()):
lhs0 = lhs_checkpoint
lhs00 = lhs00_checkpoint
t = t_checkpoint
timestep = timestep_checkpoint
oldmeshdofs = oldmeshdofs_checkpoint
oldoldmeshdofs = oldoldmeshdofs_checkpoint
oldoldoldmeshdofs = oldoldoldmeshdofs_checkpoint
interface.mark_action_fulfilled(
precice.action_read_iteration_checkpoint())
if interface.is_time_window_complete():
x, u, p = bezier.eval(['x_i', 'u_i', 'p'] @ ns,
lhs=lhs1,
meshdofs=meshdofs,
oldmeshdofs=oldmeshdofs,
oldoldmeshdofs=oldoldmeshdofs,
oldoldoldmeshdofs=oldoldoldmeshdofs,
dt=dt)
with treelog.add(treelog.DataLog()):
export.vtk('Fluid_' + str(timestep), bezier.tri, x, u=u, p=p)
interface.finalize()
def main():
print("Running utils")
# define the Nutils mesh
grid = [
np.linspace(a, b,
round((b - a) / size) + 1)
for (a, b, size) in [(0, 1, 0.05), (-.25, 0, 0.05)]
]
domain, geom = nutils.mesh.rectilinear(grid)
# Nutils namespace
ns = nutils.function.Namespace()
ns.x = geom
ns.basis = domain.basis('std', degree=1) # linear finite elements
ns.u = 'basis_n ?lhs_n' # solution
ns.dudt = 'basis_n (?lhs_n - ?lhs0_n) / ?dt' # time derivative
ns.flux = 'basis_n ?fluxdofs_n' # heat flux
ns.k = 100 # thermal diffusivity
ns.uwall = 310 # wall temperature
# define the weak form
res = domain.integral('(basis_n dudt + k basis_n,i u_,i) d:x' @ ns,
degree=2)
# define Dirichlet boundary condition
sqr = domain.boundary['bottom'].integral('(u - uwall)^2 d:x' @ ns,
degree=2)
cons = nutils.solver.optimize('lhs', sqr, droptol=1e-15)
# preCICE setup
interface = precice.Interface("Solid", "../precice-config.xml", 0, 1)
# define coupling mesh
mesh_name = "Solid-Mesh"
mesh_id = interface.get_mesh_id(mesh_name)
coupling_boundary = domain.boundary['top']
coupling_sample = coupling_boundary.sample(
'gauss', degree=2) # mesh vertices at Gauss points
vertices = coupling_sample.eval(ns.x)
vertex_ids = interface.set_mesh_vertices(mesh_id, vertices)
# coupling data
flux_id = interface.get_data_id("Heat-Flux", mesh_id)
temperature_id = interface.get_data_id("Temperature", mesh_id)
# helper functions to project heat flux to coupling boundary
projection_matrix = coupling_boundary.integrate(
ns.eval_nm('basis_n basis_m d:x'), degree=2)
projection_cons = np.zeros(res.shape)
projection_cons[projection_matrix.rowsupp(1e-15)] = np.nan
def fluxdofs(v):
return projection_matrix.solve(v, constrain=projection_cons)
precice_dt = interface.initialize()
cons0 = cons # to not lose the Dirichlet BC at the bottom
lhs0 = np.zeros(res.shape) # solution from previous timestep
timestep = 0
dt = 0.01
# set u = uwall as initial condition and visualize
sqr = domain.integral('(u - uwall)^2' @ ns, degree=2)
lhs0 = nutils.solver.optimize('lhs', sqr)
bezier = domain.sample('bezier', 2)
x, u = bezier.eval(['x_i', 'u'] @ ns, lhs=lhs0)
with treelog.add(treelog.DataLog()):
nutils.export.vtk('Solid_0', bezier.tri, x, T=u)
while interface.is_coupling_ongoing():
# read temperature from interface
if interface.is_read_data_available():
temperature_values = interface.read_block_scalar_data(
temperature_id, vertex_ids)
temperature_function = coupling_sample.asfunction(
temperature_values)
sqr = coupling_sample.integral((ns.u - temperature_function)**2)
cons = nutils.solver.optimize('lhs',
sqr,
droptol=1e-15,
constrain=cons0)
# save checkpoint
if interface.is_action_required(
precice.action_write_iteration_checkpoint()):
lhs_checkpoint = lhs0
timestep_checkpoint = timestep
interface.mark_action_fulfilled(
precice.action_write_iteration_checkpoint())
# potentially adjust non-matching timestep sizes
dt = min(dt, precice_dt)
# solve nutils timestep
lhs = nutils.solver.solve_linear('lhs',
res,
constrain=cons,
arguments=dict(lhs0=lhs0, dt=dt))
# write heat fluxes to interface
if interface.is_write_data_required(dt):
flux_function = res.eval(lhs0=lhs0, lhs=lhs, dt=dt)
flux_values = coupling_sample.eval(
'-flux' @ ns, fluxdofs=fluxdofs(flux_function))
interface.write_block_scalar_data(flux_id, vertex_ids, flux_values)
# do the coupling
precice_dt = interface.advance(dt)
# advance variables
timestep += 1
lhs0 = lhs
# read checkpoint if required
if interface.is_action_required(
precice.action_read_iteration_checkpoint()):
lhs0 = lhs_checkpoint
timestep = timestep_checkpoint
interface.mark_action_fulfilled(
precice.action_read_iteration_checkpoint())
else: # go to next timestep
if timestep % 20 == 0: # visualize
bezier = domain.sample('bezier', 2)
x, u = bezier.eval(['x_i', 'u'] @ ns, lhs=lhs)
with treelog.add(treelog.DataLog()):
nutils.export.vtk('Solid_' + str(timestep),
bezier.tri,
x,
T=u)
interface.finalize()
def main(side='Dirichlet'):
print("Running nutils")
# domain size
y_bottom, y_top = 0, 1
x_left, x_right = 0, 2
x_coupling = 1 # x coordinate of coupling interface
n = 10 # number of mesh vertices per dimension
if side == 'Dirichlet':
x_grid = np.linspace(x_left, x_coupling, n)
elif side == 'Neumann':
x_grid = np.linspace(x_coupling, x_right, n)
else:
raise Exception('invalid side {!r}'.format(side))
y_grid = np.linspace(y_bottom, y_top, n)
# define the Nutils mesh
domain, geom = nutils.mesh.rectilinear([x_grid, y_grid])
# Nutils namespace
ns = nutils.function.Namespace()
ns.x = geom
degree = 1 # linear finite elements
ns.basis = domain.basis('std', degree=degree)
ns.alpha = 3 # parameter of problem
ns.beta = 1.3 # parameter of problem
ns.u = 'basis_n ?lhs_n' # solution
ns.dudt = 'basis_n (?lhs_n - ?lhs0_n) / ?dt' # time derivative
ns.flux = 'basis_n ?fluxdofs_n' # heat flux
ns.f = 'beta - 2 - 2 alpha' # rhs
ns.uexact = '1 + x_0 x_0 + alpha x_1 x_1 + beta ?t' # analytical solution
# define the weak form
res0 = domain.integral(
'(basis_n dudt - basis_n f + basis_n,i u_,i) d:x' @ ns,
degree=degree * 2)
# set boundary conditions at non-coupling boundaries
# top and bottom boundary are non-coupling for both sides
sqr0 = domain.boundary['top'].integral(
'(u - 1 - x_0 x_0 - alpha - beta ?t)^2 d:x' @ ns, degree=degree * 2)
sqr0 += domain.boundary['bottom'].integral(
'(u - 1 - x_0 x_0 - beta ?t)^2 d:x' @ ns, degree=degree * 2)
if side == 'Dirichlet': # left boundary is non-coupling
sqr0 += domain.boundary['left'].integral(
'(u - 1 - alpha x_1 x_1 - beta ?t)^2 d:x' @ ns, degree=degree * 2)
elif side == 'Neumann': # right boundary is non-coupling
sqr0 += domain.boundary['right'].integral(
'(u - 1 - x_0 x_0 - alpha x_1 x_1 - beta ?t)^2 d:x' @ ns,
degree=degree * 2)
# preCICE setup
interface = precice.Interface(side, "../precice-config.xml", 0, 1)
# define coupling mesh
mesh_name = side + "-Mesh"
mesh_id = interface.get_mesh_id(mesh_name)
coupling_boundary = domain.boundary['right' if side ==
'Dirichlet' else 'left']
coupling_sample = coupling_boundary.sample('gauss', degree=degree * 2)
vertices = coupling_sample.eval(ns.x)
vertex_ids = interface.set_mesh_vertices(mesh_id, vertices)
# coupling data
write_data = "Temperature" if side == "Neumann" else "Heat-Flux"
read_data = "Heat-Flux" if side == "Neumann" else "Temperature"
write_data_id = interface.get_data_id(write_data, mesh_id)
read_data_id = interface.get_data_id(read_data, mesh_id)
# helper functions to project heat flux to coupling boundary
projection_matrix = coupling_boundary.integrate(
ns.eval_nm('basis_n basis_m d:x'), degree=degree * 2)
projection_cons = np.zeros(res0.shape)
projection_cons[projection_matrix.rowsupp(1e-15)] = np.nan
def fluxdofs(v):
return projection_matrix.solve(v, constrain=projection_cons)
# helper data structure to apply heat flux correctly
dx_function = 'd:x' @ ns
precice_dt = interface.initialize()
# write initial data
if interface.is_action_required(precice.action_write_initial_data()):
write_data = np.zeros(len(vertex_ids))
interface.write_block_scalar_data(write_data_id, vertex_ids,
write_data)
interface.mark_action_fulfilled(precice.action_write_initial_data())
interface.initialize_data()
t = 0
# initial condition
sqr = domain.integral('(u - uexact)^2' @ ns, degree=degree * 2)
lhs0 = nutils.solver.optimize('lhs',
sqr,
droptol=1e-15,
arguments=dict(t=t))
bezier = domain.sample('bezier', degree * 2)
x, u, uexact = bezier.eval(['x_i', 'u', 'uexact'] @ ns, lhs=lhs0, t=t)
with treelog.add(treelog.DataLog()):
nutils.export.vtk(side + '-0',
bezier.tri,
x,
Temperature=u,
reference=uexact)
t += precice_dt
timestep = 0
dt = 0.1
while interface.is_coupling_ongoing():
# update (time-dependent) boundary condition
cons0 = nutils.solver.optimize('lhs',
sqr0,
droptol=1e-15,
arguments=dict(t=t))
# read data from interface
if interface.is_read_data_available():
read_data = interface.read_block_scalar_data(
read_data_id, vertex_ids)
read_function = coupling_sample.asfunction(read_data)
if side == 'Dirichlet':
sqr = coupling_sample.integral((ns.u - read_function)**2)
cons = nutils.solver.optimize('lhs',
sqr,
droptol=1e-15,
constrain=cons0,
arguments=dict(t=t))
res = res0
else:
cons = cons0
res = res0 + coupling_sample.integral(
ns.basis * read_function * dx_function)
# save checkpoint
if interface.is_action_required(
precice.action_write_iteration_checkpoint()):
lhs_checkpoint = lhs0
t_checkpoint = t
timestep_checkpoint = timestep
interface.mark_action_fulfilled(
precice.action_write_iteration_checkpoint())
# potentially adjust non-matching timestep sizes
dt = min(dt, precice_dt)
# solve nutils timestep
lhs = nutils.solver.solve_linear('lhs',
res,
constrain=cons,
arguments=dict(lhs0=lhs0, dt=dt, t=t))
# write data to interface
if interface.is_write_data_required(dt):
if side == 'Dirichlet':
flux_function = res.eval(lhs0=lhs0, lhs=lhs, dt=dt, t=t)
write_data = coupling_sample.eval(
'flux' @ ns, fluxdofs=fluxdofs(flux_function))
else:
write_data = coupling_sample.eval('u' @ ns, lhs=lhs)
interface.write_block_scalar_data(write_data_id, vertex_ids,
write_data)
# do the coupling
precice_dt = interface.advance(dt)
# advance variables
t += dt
timestep += 1
lhs0 = lhs
# read checkpoint if required
if interface.is_action_required(
precice.action_read_iteration_checkpoint()):
lhs0 = lhs_checkpoint
t = t_checkpoint
timestep = timestep_checkpoint
interface.mark_action_fulfilled(
precice.action_read_iteration_checkpoint())
else: # go to next timestep
bezier = domain.sample('bezier', degree * 2)
x, u, uexact = bezier.eval(['x_i', 'u', 'uexact'] @ ns,
lhs=lhs,
t=t)
with treelog.add(treelog.DataLog()):
nutils.export.vtk(side + "-" + str(timestep),
bezier.tri,
x,
Temperature=u,
reference=uexact)
interface.finalize()
type=str,
default="precice-config.xml")
try:
args = parser.parse_args()
except SystemExit:
print("")
print(
"Did you forget adding the precice configuration file as an argument?")
print("Try '$ python SolidSolver.py precice-config.xml'")
quit()
print("N: " + str(N))
print("Configure preCICE...")
interface = precice.Interface("Solid", args.configurationFileName, 0, 1)
print("preCICE configured...")
dimensions = interface.get_dimensions()
pressure = p0 * np.ones(N + 1)
crossSectionLength = a0 * np.ones(N + 1)
meshID = interface.get_mesh_id("Solid-Nodes-Mesh")
crossSectionLengthID = interface.get_data_id("CrossSectionLength", meshID)
pressureID = interface.get_data_id("Pressure", meshID)
vertexIDs = np.zeros(N + 1)
grid = np.zeros([N + 1, dimensions])
grid[:, 0] = np.linspace(0, L, N + 1) # x component