def test_init_rhs(self, backend):
mesh = MeshGrid.from_step((4, 3, 3), 1)
solver = FieldSolver(mesh, [])
solver.init_rhs_vector_in_full_domain(ArrayOnGrid(mesh),
ArrayOnGrid(mesh))
assert_array_equal(solver.rhs, np.zeros(3 * 2 * 2))
pot = ArrayOnGrid(mesh)
pot.apply_boundary_values(BoundaryConditionsConf(-2))
solver.init_rhs_vector_in_full_domain(ArrayOnGrid(mesh), pot)
assert_array_equal(solver.rhs,
[6, 4, 6, 6, 4, 6, 6, 4, 6, 6, 4, 6]) # what
del solver
mesh = MeshGrid.from_step((4, 4, 5), 1)
pot = ArrayOnGrid(mesh)
pot.apply_boundary_values(BoundaryConditionsConf(-2))
solver = FieldSolver(mesh, [])
solver.init_rhs_vector_in_full_domain(ArrayOnGrid(mesh), pot)
assert_array_equal(solver.rhs, [
6, 4, 6, 4, 2, 4, 6, 4, 6, 4, 2, 4, 2, 0, 2, 4, 2, 4, 4, 2, 4, 2,
0, 2, 4, 2, 4, 6, 4, 6, 4, 2, 4, 6, 4, 6
]) # what
del solver
mesh = MeshGrid.from_step((8, 12, 5), (2, 3, 1))
pot = ArrayOnGrid(mesh)
pot.apply_boundary_values(BoundaryConditionsConf(-1))
solver = FieldSolver(mesh, [])
solver.init_rhs_vector_in_full_domain(ArrayOnGrid(mesh), pot)
assert_array_equal(solver.rhs, [
49, 40, 49, 45, 36, 45, 49, 40, 49, 13, 4, 13, 9, 0, 9, 13, 4, 13,
13, 4, 13, 9, 0, 9, 13, 4, 13, 49, 40, 49, 45, 36, 45, 49, 40, 49
])
del solver
mesh = MeshGrid.from_step((4, 6, 9), (1, 2, 3))
charge = ArrayOnGrid(mesh)
charge._data = np.array([[[0, 0, 0, 0], [0, 0, 0, 0], [0, 0, 0, 0],
[0, 0, 0, 0]],
[[0, 0, 0, 0], [0, 1, 2, 0], [0, -1, 0, 0],
[0, 0, 0, 0]],
[[0, 0, 0, 0], [0, 3, 4, 0], [0, 0, -1, 0],
[0, 0, 0, 0]],
[[0, 0, 0, 0], [0, 5, 6, 0], [0, -1, 0, 0],
[0, 0, 0, 0]],
[[0, 0, 0, 0], [0, 0, 0, 0], [0, 0, 0, 0],
[0, 0, 0, 0]]])
solver = FieldSolver(mesh, [])
solver.init_rhs_vector_in_full_domain(charge, ArrayOnGrid(mesh))
assert_allclose(
solver.rhs, -np.array([1, 3, 5, -1, 0, -1, 2, 4, 6, 0, -1, 0]) *
np.pi * 4 * 36)
solver = FieldSolver(mesh, [])
nodep = solver.generate_nodes_in_regions(
[InnerRegion('test', Box((1, 2, 3), (1, 2, 3)), 3)])
solver.nodes_in_regions, solver.potential_in_regions = nodep
solver.init_rhs_vector(ArrayOnGrid(mesh), ArrayOnGrid(mesh))
assert_array_equal(solver.rhs, [3, 3, 0, 3, 3, 0, 3, 3, 0, 3, 3, 0])
def test_weight_particles_charge_to_mesh(self):
mesh = SpatialMeshConf((2, 4, 8),
(1, 2, 4)).make(BoundaryConditionsConf())
particle_arrays = [ParticleArray(1, -2, 4, [(1, 1, 3)], [(0, 0, 0)])]
mesh.weight_particles_charge_to_mesh(particle_arrays)
assert_array_equal(
mesh.charge_density,
np.array([[[0, 0, 0], [0, 0, 0], [0, 0, 0]],
[[-0.25 / 8, -0.75 / 8, 0], [-0.25 / 8, -0.75 / 8, 0],
[0, 0, 0]], [[0, 0, 0], [0, 0, 0], [0, 0, 0]]]))
particle_arrays = [
ParticleArray([1, 2], -2, 4, [(1, 1, 3), (1, 1, 3)],
np.zeros((2, 3)))
]
mesh.clear_old_density_values()
mesh.weight_particles_charge_to_mesh(particle_arrays)
assert_array_equal(
mesh.charge_density,
np.array([[[0, 0, 0], [0, 0, 0], [0, 0, 0]],
[[-0.25 / 4, -0.75 / 4, 0], [-0.25 / 4, -0.75 / 4, 0],
[0, 0, 0]], [[0, 0, 0], [0, 0, 0], [0, 0, 0]]]))
mesh.clear_old_density_values()
particle_arrays = [ParticleArray(1, -2, 4, [(2, 4, 8)], [(0, 0, 0)])]
mesh.weight_particles_charge_to_mesh(particle_arrays)
assert_array_equal(
mesh.charge_density,
np.array([[[0, 0, 0], [0, 0, 0], [0, 0, 0]],
[[0, 0, 0], [0, 0, 0], [0, 0, 0]],
[[0, 0, 0], [0, 0, 0], [0, 0, -0.25]]]))
particle_arrays = [ParticleArray(1, -2, 4, [(1, 2, 8.1)], [(0, 0, 0)])]
with pytest.raises(ValueError,
match="Position is out of meshgrid bounds"):
mesh.weight_particles_charge_to_mesh(particle_arrays)
def test_do_init_potential(self):
mesh = SpatialMesh.do_init((12, 12, 12), (4, 4, 6),
BoundaryConditionsConf(1, 2, 3, 4, 5, 6))
potential = np.array([[[5., 1., 6.], [5., 1., 6.], [5., 1., 6.], [5., 1., 6.]],
[[5., 3., 6.], [5., 0., 6.], [5., 0., 6.], [5., 4., 6.]],
[[5., 3., 6.], [5., 0., 6.], [5., 0., 6.], [5., 4., 6.]],
[[5., 2., 6.], [5., 2., 6.], [5., 2., 6.], [5., 2., 6.]]])
assert_array_equal(mesh.potential, potential)
def test_field_at_position(self):
mesh = SpatialMeshConf((2, 4, 8),
(1, 2, 4)).make(BoundaryConditionsConf())
mesh.electric_field[1:2, 0:2, 0:2] = np.array([[[2, 1, 0], [-3, 1, 0]],
[[0, -1, 0], [-1, 0,
0]]])
assert_array_equal(mesh.field_at_position([(1, 1, 3)]),
[(-1.25, 0.375, 0)])
def test_dict(self):
mesh = SpatialMesh.do_init((4, 2, 3), (2, 1, 3), BoundaryConditionsConf())
d = mesh.dict
assert d.keys() == {"mesh", "electric_field", "potential", "charge_density"}
assert d["mesh"] == MeshGrid((4, 2, 3), (3, 3, 2))
assert_array_equal(d["electric_field"], np.zeros((3, 3, 2, 3)))
assert_array_equal(d["potential"], np.zeros((3, 3, 2)))
assert_array_equal(d["charge_density"], np.zeros((3, 3, 2)))
def test_is_potential_equal_on_boundaries(self):
for x, y, z in np.ndindex(4, 4, 3):
mesh = SpatialMesh.do_init((12, 12, 12), (4, 4, 6), BoundaryConditionsConf(3.14))
assert mesh.is_potential_equal_on_boundaries()
mesh.potential[x, y, z] = 2.
if np.all([x > 0, y > 0, z > 0]) and np.all([x < 3, y < 3, z < 2]):
assert mesh.is_potential_equal_on_boundaries()
else:
assert not mesh.is_potential_equal_on_boundaries()
def test_init_h5(self, tmpdir):
fname = tmpdir.join('test_spatialmesh_init.h5')
mesh1 = SpatialMesh.do_init((10, 20, 30), (2, 1, 3),
BoundaryConditionsConf(3.14))
with h5py.File(fname, mode="w") as h5file:
mesh1.save_h5(h5file.create_group("/mesh"))
with h5py.File(fname, mode="r") as h5file:
mesh2 = SpatialMesh.load_h5(h5file["/mesh"])
assert mesh1 == mesh2
mesh2 = SpatialMesh.do_init((10, 20, 30), (2, 1, 3),
BoundaryConditionsConf(3.14))
assert mesh1 == mesh2
mesh2.potential = np.random.ranf(mesh1.potential.shape)
assert mesh1 != mesh2
mesh2 = SpatialMesh.do_init((10, 20, 30), (2, 1, 3),
BoundaryConditionsConf(3.14))
assert mesh1 == mesh2
mesh2.charge_density = np.random.ranf(mesh1.charge_density.shape)
assert mesh1 != mesh2
mesh2 = SpatialMesh.do_init((10, 20, 30), (2, 1, 3),
BoundaryConditionsConf(3.14))
assert mesh1 == mesh2
mesh2.electric_field = np.random.ranf(mesh1.electric_field.shape)
assert mesh1 != mesh2
mesh2 = SpatialMesh.do_init((10, 20, 30), (2, 1, 3),
BoundaryConditionsConf(3.14))
mesh2.potential = np.random.ranf(mesh1.potential.shape)
mesh2.charge_density = np.random.ranf(mesh1.charge_density.shape)
mesh2.electric_field = np.random.ranf(mesh1.electric_field.shape)
assert mesh1 != mesh2
with h5py.File(fname, mode="w") as h5file:
mesh2.save_h5(h5file.create_group("/SpatialMesh"))
with h5py.File(fname, mode="r") as h5file:
mesh1 = SpatialMesh.load_h5(h5file["/SpatialMesh"])
assert mesh1 == mesh2
def test_do_init(self):
a = ArrayOnGrid(MeshGrid.from_step((12, 12, 12), (4, 4, 6)))
a.apply_boundary_values(BoundaryConditionsConf(1, 2, 3, 4, 5, 6))
expected = np.array([[[5., 1., 6.], [5., 1., 6.], [5., 1., 6.],
[5., 1., 6.]],
[[5., 3., 6.], [5., 0., 6.], [5., 0., 6.],
[5., 4., 6.]],
[[5., 3., 6.], [5., 0., 6.], [5., 0., 6.],
[5., 4., 6.]],
[[5., 2., 6.], [5., 2., 6.], [5., 2., 6.],
[5., 2., 6.]]])
assert_array_equal(a.data, expected)
def test_do_init_ranges(self):
with pytest.raises(ValueError) as excinfo:
SpatialMesh.do_init((10, 20), (2, 1, 3),
BoundaryConditionsConf(3.14))
assert excinfo.value.args == ('grid_size must be a flat triple', (10,
20))
with pytest.raises(ValueError) as excinfo:
SpatialMesh.do_init(((1, 2), 3), (1, 1, 1),
BoundaryConditionsConf(3.14))
assert excinfo.value.args == ('grid_size must be a flat triple',
((1, 2), 3))
with pytest.raises(ValueError) as excinfo:
SpatialMesh.do_init((10, 10, 10),
[[2, 1, 3], [4, 5, 6], [7, 8, 9]],
BoundaryConditionsConf(3.14))
assert excinfo.value.args == (
'step_size must be a flat triple',
[[2, 1, 3], [4, 5, 6], [7, 8, 9]],
)
with pytest.raises(ValueError) as excinfo:
SpatialMesh.do_init((10, 10, -30), (2, 1, 3),
BoundaryConditionsConf(3.14))
assert excinfo.value.args == ('grid_size must be positive', (10, 10,
-30))
with pytest.raises(ValueError) as excinfo:
SpatialMesh.do_init((10, 10, 10), (2, -2, 3),
BoundaryConditionsConf(3.14))
assert excinfo.value.args == ('step_size must be positive', (2, -2, 3))
with pytest.raises(ValueError) as excinfo:
SpatialMesh.do_init((10, 10, 10), (17, 2, 3),
BoundaryConditionsConf(3.14))
assert excinfo.value.args == (
'step_size cannot be bigger than grid_size', )
def test_do_init_warnings(self, capsys, caplog):
mesh = SpatialMesh.do_init((12, 12, 12), (5, 5, 7), BoundaryConditionsConf(0))
out, err = capsys.readouterr()
assert out == ""
assert err == ""
assert caplog.record_tuples == [
('root', logging.WARNING,
"X step on spatial grid was reduced to 4.000 from 5.000 to fit in a round number of cells."),
('root', logging.WARNING,
"Y step on spatial grid was reduced to 4.000 from 5.000 to fit in a round number of cells."),
('root', logging.WARNING,
"Z step on spatial grid was reduced to 6.000 from 7.000 to fit in a round number of cells."),
]
def test_do_init_ranges(self):
with raises(ValueError):
MeshGrid.from_step((10, 20), (2, 1, 3))
with raises(ValueError):
MeshGrid.from_step(((1, 2), 3), (1, 1, 1))
with raises(ValueError):
MeshGrid.from_step((10, 10, 10), [[2, 1, 3], [4, 5, 6], [7, 8, 9]],
BoundaryConditionsConf(3.14))
with raises(ValueError):
MeshGrid.from_step((10, 10, -30), (2, 1, 3))
with raises(ValueError):
MeshGrid.from_step((10, 10, 10), (2, -2, 3))
mesh = MeshGrid.from_step((10, 10, 10), (17, 2, 3))
assert tuple(mesh.cell) == (10, 2, 2.5)
def test_transfer_solution_to_spat_mesh(self):
mesh = SpatialMeshConf((4, 6, 9),
(1, 2, 3)).make(BoundaryConditionsConf())
solver = FieldSolver(mesh, [])
solver.phi_vec = np.array(range(1, 3 * 2 * 2 + 1))
solver.transfer_solution_to_spat_mesh(mesh)
assert_array_equal(
mesh.potential[1:-1, 1:-1, 1:-1],
[[[1, 7], [4, 10]], [[2, 8], [5, 11]], [[3, 9], [6, 12]]])
assert_array_equal(
mesh.potential,
[[[0, 0, 0, 0], [0, 0, 0, 0], [0, 0, 0, 0], [0, 0, 0, 0]],
[[0, 0, 0, 0], [0, 1, 7, 0], [0, 4, 10, 0], [0, 0, 0, 0]],
[[0, 0, 0, 0], [0, 2, 8, 0], [0, 5, 11, 0], [0, 0, 0, 0]],
[[0, 0, 0, 0], [0, 3, 9, 0], [0, 6, 12, 0], [0, 0, 0, 0]],
[[0, 0, 0, 0], [0, 0, 0, 0], [0, 0, 0, 0], [0, 0, 0, 0]]])
def test_do_init(self):
mesh = SpatialMesh.do_init((4, 2, 3), (2, 1, 3), BoundaryConditionsConf(3.14))
assert mesh.mesh.node_coordinates.shape == (3, 3, 2, 3)
assert mesh.charge_density.shape == (3, 3, 2)
assert mesh.potential.shape == (3, 3, 2)
assert mesh.electric_field.shape == (3, 3, 2, 3)
coords = np.array([[[[0., 0., 0.], [0., 0., 3.]], [[0., 1., 0.], [0., 1., 3.]],
[[0., 2., 0.], [0., 2., 3.]]],
[[[2., 0., 0.], [2., 0., 3.]], [[2., 1., 0.], [2., 1., 3.]],
[[2., 2., 0.], [2., 2., 3.]]],
[[[4., 0., 0.], [4., 0., 3.]], [[4., 1., 0.], [4., 1., 3.]],
[[4., 2., 0.], [4., 2., 3.]]]])
assert_array_equal(mesh.mesh.node_coordinates, coords)
assert_array_equal(mesh.charge_density, np.zeros((3, 3, 2)))
potential = np.full((3, 3, 2), 3.14)
assert_array_equal(mesh.potential, potential)
assert_array_equal(mesh.electric_field, np.zeros((3, 3, 2, 3)))
def test_init_rhs(self):
mesh = SpatialMeshConf((4, 3, 3)).make(BoundaryConditionsConf())
solver = FieldSolver(mesh, [])
solver.init_rhs_vector_in_full_domain(mesh)
assert_array_equal(solver.rhs, np.zeros(3 * 2 * 2))
mesh = SpatialMeshConf((4, 3, 3)).make(BoundaryConditionsConf(-2))
solver = FieldSolver(mesh, [])
solver.init_rhs_vector_in_full_domain(mesh)
assert_array_equal(solver.rhs,
[6, 4, 6, 6, 4, 6, 6, 4, 6, 6, 4, 6]) # what
mesh = SpatialMeshConf((4, 4, 5)).make(BoundaryConditionsConf(-2))
solver = FieldSolver(mesh, [])
solver.init_rhs_vector_in_full_domain(mesh)
assert_array_equal(solver.rhs, [
6, 4, 6, 4, 2, 4, 6, 4, 6, 4, 2, 4, 2, 0, 2, 4, 2, 4, 4, 2, 4, 2,
0, 2, 4, 2, 4, 6, 4, 6, 4, 2, 4, 6, 4, 6
]) # what
mesh = SpatialMeshConf((8, 12, 5),
(2, 3, 1)).make(BoundaryConditionsConf(-1))
solver = FieldSolver(mesh, [])
solver.init_rhs_vector_in_full_domain(mesh)
assert_array_equal(solver.rhs, [
49, 40, 49, 45, 36, 45, 49, 40, 49, 13, 4, 13, 9, 0, 9, 13, 4, 13,
13, 4, 13, 9, 0, 9, 13, 4, 13, 49, 40, 49, 45, 36, 45, 49, 40, 49
])
mesh = SpatialMeshConf((4, 6, 9),
(1, 2, 3)).make(BoundaryConditionsConf())
solver = FieldSolver(mesh, [])
mesh.charge_density = np.array([[[0, 0, 0, 0], [0, 0, 0, 0],
[0, 0, 0, 0], [0, 0, 0, 0]],
[[0, 0, 0, 0], [0, 1, 2, 0],
[0, -1, 0, 0], [0, 0, 0, 0]],
[[0, 0, 0, 0], [0, 3, 4, 0],
[0, 0, -1, 0], [0, 0, 0, 0]],
[[0, 0, 0, 0], [0, 5, 6, 0],
[0, -1, 0, 0], [0, 0, 0, 0]],
[[0, 0, 0, 0], [0, 0, 0, 0],
[0, 0, 0, 0], [0, 0, 0, 0]]])
solver.init_rhs_vector_in_full_domain(mesh)
assert_allclose(
solver.rhs, -np.array([1, 3, 5, -1, 0, -1, 2, 4, 6, 0, -1, 0]) *
np.pi * 4 * 36)
mesh = SpatialMeshConf((4, 6, 9),
(1, 2, 3)).make(BoundaryConditionsConf())
solver = FieldSolver(mesh, [])
region = InnerRegion('test', Box((1, 2, 3), (1, 2, 3)), 3)
solver.init_rhs_vector(mesh, [region])
assert_array_equal(solver.rhs, [3, 3, 0, 3, 3, 0, 3, 3, 0, 3, 3, 0])
def test_eval_field_from_potential(self):
mesh = SpatialMeshConf((1.5, 2, 1),
(0.5, 1, 1)).make(BoundaryConditionsConf())
mesh.potential = np.stack([
np.array([[0., 0, 0], [1, 2, 3], [4, 3, 2], [4, 4, 4]]),
np.zeros((4, 3))
], -1)
FieldSolver.eval_fields_from_potential(mesh)
expected = np.array([[[[-2, 0, 0], [0, 0, 0]], [[-4, 0, 0], [0, 0, 0]],
[[-6, 0, 0], [0, 0, 0]]],
[[[-4, -1, 1], [0, 0, 1]], [[-3, -1, 2],
[0, 0, 2]],
[[-2, -1, 3], [0, 0, 3]]],
[[[-3, 1, 4], [0, 0, 4]], [[-2, 1, 3], [0, 0, 3]],
[[-1, 1, 2], [0, 0, 2]]],
[[[0, 0, 4], [0, 0, 4]], [[-2, 0, 4], [0, 0, 4]],
[[-4, 0, 4], [0, 0, 4]]]])
assert_array_equal(mesh.electric_field, expected)
def test_config(self, capsys):
mesh = SpatialMeshConf((4, 2, 3), (2, 1, 3)).make(BoundaryConditionsConf(3.14))
assert mesh.mesh.node_coordinates.shape == (3, 3, 2, 3)
assert mesh.charge_density.shape == (3, 3, 2)
assert mesh.potential.shape == (3, 3, 2)
assert mesh.electric_field.shape == (3, 3, 2, 3)
coords = np.array([[[[0., 0., 0.], [0., 0., 3.]], [[0., 1., 0.], [0., 1., 3.]],
[[0., 2., 0.], [0., 2., 3.]]],
[[[2., 0., 0.], [2., 0., 3.]], [[2., 1., 0.], [2., 1., 3.]],
[[2., 2., 0.], [2., 2., 3.]]],
[[[4., 0., 0.], [4., 0., 3.]], [[4., 1., 0.], [4., 1., 3.]],
[[4., 2., 0.], [4., 2., 3.]]]])
assert_array_equal(mesh.mesh.node_coordinates, coords)
assert_array_equal(mesh.charge_density, np.zeros((3, 3, 2)))
potential = np.full((3, 3, 2), 3.14)
assert_array_equal(mesh.potential, potential)
assert_array_equal(mesh.electric_field, np.zeros((3, 3, 2, 3)))
out, err = capsys.readouterr()
assert out == ""
assert err == ""
def test_construct_equation_matrix(self):
mesh = SpatialMeshConf((4, 6, 9),
(1, 2, 3)).make(BoundaryConditionsConf())
solver = FieldSolver(mesh, [])
solver.construct_equation_matrix(mesh, [])
d = -2 * (2 * 2 * 3 * 3 + 3 * 3 + 2 * 2)
x = 2 * 2 * 3 * 3
y = 3 * 3
z = 2 * 2
assert_array_equal(solver.A.toarray(),
[[d, x, 0, y, 0, 0, z, 0, 0, 0, 0, 0],
[x, d, x, 0, y, 0, 0, z, 0, 0, 0, 0],
[0, x, d, 0, 0, y, 0, 0, z, 0, 0, 0],
[y, 0, 0, d, x, 0, 0, 0, 0, z, 0, 0],
[0, y, 0, x, d, x, 0, 0, 0, 0, z, 0],
[0, 0, y, 0, x, d, 0, 0, 0, 0, 0, z],
[z, 0, 0, 0, 0, 0, d, x, 0, y, 0, 0],
[0, z, 0, 0, 0, 0, x, d, x, 0, y, 0],
[0, 0, z, 0, 0, 0, 0, x, d, 0, 0, y],
[0, 0, 0, z, 0, 0, y, 0, 0, d, x, 0],
[0, 0, 0, 0, z, 0, 0, y, 0, x, d, x],
[0, 0, 0, 0, 0, z, 0, 0, y, 0, x, d]])
def test_zero_nondiag_inside_objects(self):
mesh = SpatialMeshConf((4, 6, 9),
(1, 2, 3)).make(BoundaryConditionsConf())
solver = FieldSolver(mesh, [])
region = InnerRegion('test', Box((1, 2, 3), (1, 2, 3)), 3)
a = csr_matrix(np.full((12, 12), 2))
assert_array_equal(a.toarray(), [[2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2],
[2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2],
[2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2],
[2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2],
[2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2],
[2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2],
[2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2],
[2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2],
[2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2],
[2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2],
[2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2],
[2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2]])
result = solver.zero_nondiag_for_nodes_inside_objects(
a, mesh, [region])
assert_array_equal(result.toarray(),
[[1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0],
[0, 1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0],
[2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2],
[0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0, 0],
[0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0],
[2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2],
[0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0, 0],
[0, 0, 0, 0, 0, 0, 0, 1, 0, 0, 0, 0],
[2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2],
[0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0, 0],
[0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0],
[2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2, 2]])
# TODO: check algorithm if on-diagonal zeros should turn into ones
a = csr_matrix(
np.array([[4, 0, 3, 0, 0, 0, 0, 2, 0, 0, 0, 0],
[0, 0, 0, 0, 0, 0, 0, 0, 0, 3, 0, 0],
[0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0],
[0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0],
[0, 0, 0, 0, 4, 0, 0, 0, 0, 0, 0, 0],
[0, 0, 2, 0, 0, 3, 0, 0, 0, 0, 0, 0],
[0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0],
[0, 0, 2, 0, 0, 0, 0, 0, 0, 1, 0, 0],
[0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 3],
[0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0],
[0, 0, 0, 0, 0, 2, 0, 0, 0, 0, 6, 0],
[0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0]]))
result = solver.zero_nondiag_for_nodes_inside_objects(
a, mesh, [region])
assert_array_equal(result.toarray(),
[[1, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0],
[0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0],
[0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0],
[0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0],
[0, 0, 0, 0, 1, 0, 0, 0, 0, 0, 0, 0],
[0, 0, 2, 0, 0, 3, 0, 0, 0, 0, 0, 0],
[0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0],
[0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0],
[0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 3],
[0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0],
[0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 1, 0],
[0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0]])
