def test_mesh_to_geom():
if not HAVE_PYTAPS:
raise SkipTest
expected_geom = os.path.join(thisdir, "files_test_alara", "alara_geom.txt")
expected_matlib = os.path.join(thisdir, "files_test_alara",
"alara_matlib.txt")
geom = os.path.join(os.getcwd(), "alara_geom")
matlib = os.path.join(os.getcwd(), "alara_matlib")
mats = {
0: Material({
'H1': 1.0,
'K39': 1.0
}, density=1.1),
1: Material({
'H1': 0.1,
'O16': 1.0
}, density=1.2),
2: Material({'He4': 42.0}, density=1.3),
3: Material({'Tm171': 171.0}, density=1.4),
}
m = Mesh(structured_coords=[[-1, 0, 1], [-1, 0, 1], [0, 1]],
structured=True,
mats=mats)
mesh_to_geom(m, geom, matlib)
with open(expected_geom) as f:
written = f.readlines()
with open(geom) as f:
expected = f.readlines()
assert_equal(written, expected)
if os.path.isfile(geom):
os.remove(geom)
with open(expected_matlib) as f:
written = f.readlines()
with open(matlib) as f:
expected = f.readlines()
assert_equal(written, expected)
if os.path.isfile(matlib):
os.remove(matlib)
def test_mesh_to_geom():
if not HAVE_PYTAPS:
raise SkipTest
expected_geom = os.path.join(thisdir, "files_test_alara", "alara_geom.txt")
expected_matlib = os.path.join(thisdir, "files_test_alara",
"alara_matlib.txt")
geom = os.path.join(os.getcwd(), "alara_geom")
matlib = os.path.join(os.getcwd(), "alara_matlib")
mats = {
0: Material({'H1': 1.0, 'K39': 1.0}, density=1.1),
1: Material({'H1': 0.1, 'O16': 1.0}, density=1.2),
2: Material({'He4': 42.0}, density=1.3),
3: Material({'Tm171': 171.0}, density=1.4),
}
m = Mesh(structured_coords=[[-1,0,1],[-1,0,1],[0,1]], structured=True,
mats=mats)
mesh_to_geom(m, geom, matlib)
with open(expected_geom) as f:
written = f.readlines()
with open(geom) as f:
expected = f.readlines()
assert_equal(written, expected)
if os.path.isfile(geom):
os.remove(geom)
with open(expected_matlib) as f:
written = f.readlines()
with open(matlib) as f:
expected = f.readlines()
assert_equal(written, expected)
if os.path.isfile(matlib):
os.remove(matlib)
def irradiation_setup(flux_mesh,
cell_mats,
alara_params,
tally_num=4,
geom=None,
num_rays=10,
grid=False,
flux_tag="n_flux",
fluxin="alara_fluxin",
reverse=False,
alara_inp="alara_geom",
alara_matlib="alara_matlib",
output_mesh="r2s_step1.h5m"):
"""This function is used to setup the irradiation inputs after the first
R2S transport step.
Parameters
----------
flux_mesh : PyNE Meshtal object, Mesh object, or str
The source of the neutron flux information. This can be a PyNE Meshtal
object, a pyne Mesh object, or the filename an MCNP meshtal file, or
the filename of an unstructured mesh tagged with fluxes.
tally_num : int
The MCNP FMESH4 tally number of the neutron flux tally within the
meshtal file.
cell_mats : dict
Maps geometry cell numbers to PyNE Material objects.
alara_params : str
The ALARA input blocks specifying everything except the geometry
and materials. This can either be passed as string or as a file name.
geom : str, optional
The file name of a DAGMC-loadable faceted geometry. This is only
necessary if the geometry is not already loaded into memory.
num_rays : int, optional
The number of rays to fire down a mesh row for geometry discretization.
This number must be a perfect square if grid=True.
grid : bool, optional
The if False, geometry discretization will be done with randomly fired
rays. If true, a grid of sqrt(num_rays) x sqrt(num_rays) rays is used
for each mesh row.
flux_tag : str, optional
The iMesh tag for the neutron flux.
fluxin : str, optional
The name of the ALARA fluxin file to be created.
reverse : bool, optional
If True the fluxes in the fluxin file will be printed in the reverse
order of how they appear within the flux vector tag. Since MCNP and
the Meshtal class order fluxes from low energy to high energy, this
option should only be true if the transmutation data being used is
ordered from high energy to low energy.
alara_inp : str, optional
The name of the ALARA input file to be created.
alara_matlib : str, optional
The name of the alara_matlib file to be created.
output_mesh : str, optional
A mesh containing all the fluxes and materials used for irradiation
setup.
"""
if geom is not None and isfile(geom):
load(geom)
# flux_mesh is Mesh object
if isinstance(flux_mesh, Mesh):
m = flux_mesh
# flux_mesh is unstructured mesh file
elif isinstance(flux_mesh, str) and isfile(flux_mesh) \
and flux_mesh.endswith(".h5m"):
m = Mesh(structured=False, mesh=flux_mesh)
# flux_mesh is Meshtal or meshtal file
else:
# flux_mesh is meshtal file
if isinstance(flux_mesh, str) and isfile(flux_mesh):
flux_mesh = Meshtal(flux_mesh, {
tally_num: (flux_tag, flux_tag + "_err", flux_tag + "_total",
flux_tag + "_err_total")
},
meshes_have_mats=True)
m = flux_mesh.tally[tally_num]
# flux_mesh is Meshtal object
elif instance(flux_mesh, Meshtal):
m = flux_mesh.tally[tally_num]
else:
raise ValueError("meshtal argument not a Mesh object, Meshtal"
" object, MCNP meshtal file or meshtal.h5m file.")
if m.structured:
vol_fracs = discretize_geom(m, num_rays=num_rays, grid=grid)
else:
vol_fracs = discretize_geom(m)
m.cell_fracs_to_mats(vol_fracs, cell_mats)
mesh_to_fluxin(m, flux_tag, fluxin, reverse)
mesh_to_geom(m, alara_inp, alara_matlib)
if isfile(alara_params):
with open(alara_params, 'r') as f:
alara_params = f.read(alara_params)
with open(alara_inp, 'a') as f:
f.write("\n" + alara_params)
m.write_hdf5(output_mesh)
def irradiation_setup(flux_mesh, cell_mats, alara_params, tally_num=4,
geom=None, num_rays=10, grid=False, flux_tag="n_flux",
fluxin="alara_fluxin", reverse=False,
alara_inp="alara_geom", alara_matlib="alara_matlib",
output_mesh="r2s_step1.h5m"):
"""This function is used to setup the irradiation inputs after the first
R2S transport step.
Parameters
----------
flux_mesh : PyNE Meshtal object, Mesh object, or str
The source of the neutron flux information. This can be a PyNE Meshtal
object, a pyne Mesh object, or the filename an MCNP meshtal file, or
the filename of an unstructured mesh tagged with fluxes.
tally_num : int
The MCNP FMESH4 tally number of the neutron flux tally within the
meshtal file.
cell_mats : dict
Maps geometry cell numbers to PyNE Material objects.
alara_params : str
The ALARA input blocks specifying everything except the geometry
and materials. This can either be passed as string or as a file name.
geom : str, optional
The file name of a DAGMC-loadable faceted geometry. This is only
necessary if the geometry is not already loaded into memory.
num_rays : int, optional
The number of rays to fire down a mesh row for geometry discretization.
This number must be a perfect square if grid=True.
grid : bool, optional
The if False, geometry discretization will be done with randomly fired
rays. If true, a grid of sqrt(num_rays) x sqrt(num_rays) rays is used
for each mesh row.
flux_tag : str, optional
The iMesh tag for the neutron flux.
fluxin : str, optional
The name of the ALARA fluxin file to be created.
reverse : bool, optional
If True the fluxes in the fluxin file will be printed in the reverse
order of how they appear within the flux vector tag. Since MCNP and
the Meshtal class order fluxes from low energy to high energy, this
option should only be true if the transmutation data being used is
ordered from high energy to low energy.
alara_inp : str, optional
The name of the ALARA input file to be created.
alara_matlib : str, optional
The name of the alara_matlib file to be created.
output_mesh : str, optional
A mesh containing all the fluxes and materials used for irradiation
setup.
"""
if geom is not None and isfile(geom):
load(geom)
# flux_mesh is Mesh object
if isinstance(flux_mesh, Mesh):
m = flux_mesh
# flux_mesh is unstructured mesh file
elif isinstance(flux_mesh, str) and isfile(flux_mesh) \
and flux_mesh.endswith(".h5m"):
m = Mesh(structured=False, mesh=flux_mesh)
# flux_mesh is Meshtal or meshtal file
else:
# flux_mesh is meshtal file
if isinstance(flux_mesh, str) and isfile(flux_mesh):
flux_mesh = Meshtal(flux_mesh, {tally_num: (flux_tag,
flux_tag + "_err",
flux_tag + "_total",
flux_tag + "_err_total")},
meshes_have_mats=True)
m = flux_mesh.tally[tally_num]
# flux_mesh is Meshtal object
elif instance(flux_mesh, Meshtal):
m = flux_mesh.tally[tally_num]
else:
raise ValueError("meshtal argument not a Mesh object, Meshtal"
" object, MCNP meshtal file or meshtal.h5m file.")
if m.structured:
vol_fracs = discretize_geom(m, num_rays=num_rays, grid=grid)
else:
vol_fracs = discretize_geom(m)
m.cell_fracs_to_mats(vol_fracs, cell_mats)
mesh_to_fluxin(m, flux_tag, fluxin, reverse)
mesh_to_geom(m, alara_inp, alara_matlib)
if isfile(alara_params):
with open(alara_params, 'r') as f:
alara_params = f.read(alara_params)
with open(alara_inp, 'a') as f:
f.write("\n" + alara_params)
m.write_hdf5(output_mesh)