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import numpy as nm
from sfepy.linalg import dot_sequences
from sfepy.terms.terms import Term, terms
class DivGradTerm(Term):
r"""
Diffusion term.
:Definition:
.. math::
\int_{\Omega} \nu\ \nabla \ul{v} : \nabla \ul{u} \mbox{ , }
\int_{\Omega} \nu\ \nabla \ul{u} : \nabla \ul{w} \\
\int_{\Omega} \nabla \ul{v} : \nabla \ul{u} \mbox{ , }
\int_{\Omega} \nabla \ul{u} : \nabla \ul{w}
:Arguments 1:
- material : :math:`\nu` (viscosity, optional)
- virtual : :math:`\ul{v}`
- state : :math:`\ul{u}`
:Arguments 2:
- material : :math:`\nu` (viscosity, optional)
- parameter_1 : :math:`\ul{u}`
- parameter_2 : :math:`\ul{w}`
"""
name = 'dw_div_grad'
arg_types = (('opt_material', 'virtual', 'state'),
('opt_material', 'parameter_1', 'parameter_2'))
arg_shapes = {'opt_material' : '1, 1', 'virtual' : ('D', 'state'),
'state' : 'D', 'parameter_1' : 'D', 'parameter_2' : 'D'}
modes = ('weak', 'eval')
function = staticmethod(terms.term_ns_asm_div_grad)
def d_div_grad(self, out, grad1, grad2, mat, vg, fmode):
sh = grad1.shape
g1 = grad1.reshape((sh[0], sh[1], sh[2] * sh[3]))
g2 = grad2.reshape((sh[0], sh[1], sh[2] * sh[3]))
aux = mat * | dot_sequences(g1[..., None], g2, 'ATB') | sfepy.linalg.dot_sequences |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Mon Dec 28 09:33:53 2020
@author: dhulls
"""
from __future__ import print_function
from __future__ import absolute_import
from argparse import ArgumentParser
import numpy as nm
import sys
sys.path.append('.')
from sfepy.base.base import IndexedStruct, Struct
from sfepy.discrete import (FieldVariable, Material, Integral, Function,
Equation, Equations, Problem)
from sfepy.discrete.fem import Mesh, FEDomain, Field
from sfepy.terms import Term
from sfepy.discrete.conditions import Conditions, EssentialBC, InitialCondition
from sfepy.solvers.ls import ScipyDirect
from sfepy.solvers.nls import Newton
from sfepy.postprocess.viewer import Viewer
from sfepy.postprocess.probes_vtk import ProbeFromFile, Probe
import numpy as np
helps = {
'show' : 'show the results figure',
}
from sfepy import data_dir
parser = ArgumentParser()
parser.add_argument('--version', action='version', version='%(prog)s')
parser.add_argument('-s', '--show',
action="store_true", dest='show',
default=False, help=helps['show'])
options = parser.parse_args()
mesh = | Mesh.from_file(data_dir + '/meshes/3d/fluid_mesh.inp') | sfepy.discrete.fem.Mesh.from_file |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Mon Dec 28 09:33:53 2020
@author: dhulls
"""
from __future__ import print_function
from __future__ import absolute_import
from argparse import ArgumentParser
import numpy as nm
import sys
sys.path.append('.')
from sfepy.base.base import IndexedStruct, Struct
from sfepy.discrete import (FieldVariable, Material, Integral, Function,
Equation, Equations, Problem)
from sfepy.discrete.fem import Mesh, FEDomain, Field
from sfepy.terms import Term
from sfepy.discrete.conditions import Conditions, EssentialBC, InitialCondition
from sfepy.solvers.ls import ScipyDirect
from sfepy.solvers.nls import Newton
from sfepy.postprocess.viewer import Viewer
from sfepy.postprocess.probes_vtk import ProbeFromFile, Probe
import numpy as np
helps = {
'show' : 'show the results figure',
}
from sfepy import data_dir
parser = ArgumentParser()
parser.add_argument('--version', action='version', version='%(prog)s')
parser.add_argument('-s', '--show',
action="store_true", dest='show',
default=False, help=helps['show'])
options = parser.parse_args()
mesh = Mesh.from_file(data_dir + '/meshes/3d/fluid_mesh.inp')
domain = | FEDomain('domain', mesh) | sfepy.discrete.fem.FEDomain |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Mon Dec 28 09:33:53 2020
@author: dhulls
"""
from __future__ import print_function
from __future__ import absolute_import
from argparse import ArgumentParser
import numpy as nm
import sys
sys.path.append('.')
from sfepy.base.base import IndexedStruct, Struct
from sfepy.discrete import (FieldVariable, Material, Integral, Function,
Equation, Equations, Problem)
from sfepy.discrete.fem import Mesh, FEDomain, Field
from sfepy.terms import Term
from sfepy.discrete.conditions import Conditions, EssentialBC, InitialCondition
from sfepy.solvers.ls import ScipyDirect
from sfepy.solvers.nls import Newton
from sfepy.postprocess.viewer import Viewer
from sfepy.postprocess.probes_vtk import ProbeFromFile, Probe
import numpy as np
helps = {
'show' : 'show the results figure',
}
from sfepy import data_dir
parser = ArgumentParser()
parser.add_argument('--version', action='version', version='%(prog)s')
parser.add_argument('-s', '--show',
action="store_true", dest='show',
default=False, help=helps['show'])
options = parser.parse_args()
mesh = Mesh.from_file(data_dir + '/meshes/3d/fluid_mesh.inp')
domain = FEDomain('domain', mesh)
omega = domain.create_region('Omega', 'all')
field_1 = | Field.from_args(name='3_velocity', dtype=nm.float64, shape=3, region=omega, approx_order=1) | sfepy.discrete.fem.Field.from_args |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Mon Dec 28 09:33:53 2020
@author: dhulls
"""
from __future__ import print_function
from __future__ import absolute_import
from argparse import ArgumentParser
import numpy as nm
import sys
sys.path.append('.')
from sfepy.base.base import IndexedStruct, Struct
from sfepy.discrete import (FieldVariable, Material, Integral, Function,
Equation, Equations, Problem)
from sfepy.discrete.fem import Mesh, FEDomain, Field
from sfepy.terms import Term
from sfepy.discrete.conditions import Conditions, EssentialBC, InitialCondition
from sfepy.solvers.ls import ScipyDirect
from sfepy.solvers.nls import Newton
from sfepy.postprocess.viewer import Viewer
from sfepy.postprocess.probes_vtk import ProbeFromFile, Probe
import numpy as np
helps = {
'show' : 'show the results figure',
}
from sfepy import data_dir
parser = ArgumentParser()
parser.add_argument('--version', action='version', version='%(prog)s')
parser.add_argument('-s', '--show',
action="store_true", dest='show',
default=False, help=helps['show'])
options = parser.parse_args()
mesh = Mesh.from_file(data_dir + '/meshes/3d/fluid_mesh.inp')
domain = FEDomain('domain', mesh)
omega = domain.create_region('Omega', 'all')
field_1 = Field.from_args(name='3_velocity', dtype=nm.float64, shape=3, region=omega, approx_order=1)
field_2 = | Field.from_args(name='pressure', dtype=nm.float64, shape=1, region=omega, approx_order=1) | sfepy.discrete.fem.Field.from_args |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Mon Dec 28 09:33:53 2020
@author: dhulls
"""
from __future__ import print_function
from __future__ import absolute_import
from argparse import ArgumentParser
import numpy as nm
import sys
sys.path.append('.')
from sfepy.base.base import IndexedStruct, Struct
from sfepy.discrete import (FieldVariable, Material, Integral, Function,
Equation, Equations, Problem)
from sfepy.discrete.fem import Mesh, FEDomain, Field
from sfepy.terms import Term
from sfepy.discrete.conditions import Conditions, EssentialBC, InitialCondition
from sfepy.solvers.ls import ScipyDirect
from sfepy.solvers.nls import Newton
from sfepy.postprocess.viewer import Viewer
from sfepy.postprocess.probes_vtk import ProbeFromFile, Probe
import numpy as np
helps = {
'show' : 'show the results figure',
}
from sfepy import data_dir
parser = ArgumentParser()
parser.add_argument('--version', action='version', version='%(prog)s')
parser.add_argument('-s', '--show',
action="store_true", dest='show',
default=False, help=helps['show'])
options = parser.parse_args()
mesh = Mesh.from_file(data_dir + '/meshes/3d/fluid_mesh.inp')
domain = FEDomain('domain', mesh)
omega = domain.create_region('Omega', 'all')
field_1 = Field.from_args(name='3_velocity', dtype=nm.float64, shape=3, region=omega, approx_order=1)
field_2 = Field.from_args(name='pressure', dtype=nm.float64, shape=1, region=omega, approx_order=1)
region_0 = domain.create_region(name='Walls1', select='vertices in (y < -0.049)', kind='facet')
region_1 = domain.create_region(name='Walls2', select='vertices in (y > 0.049)', kind='facet')
region_2 = domain.create_region(name='Inlet', select='vertices in (x < -0.499)', kind='facet')
region_3 = domain.create_region(name='Outlet', select='vertices in (x > -0.499)', kind='facet')
ebc_1 = EssentialBC(name='Walls1', region=region_0, dofs={'u.[0,1,2]' : 0.0})
ebc_2 = EssentialBC(name='Walls2', region=region_1, dofs={'u.[0,1,2]' : 0.0})
ebc_3 = EssentialBC(name='Inlet', region=region_2, dofs={'u.0' : 1.0, 'u.[1,2]' : 0.0})
ebc_4 = | EssentialBC(name='Outlet', region=region_3, dofs={'p':0.0, 'u.[1,2]' : 0.0}) | sfepy.discrete.conditions.EssentialBC |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Mon Dec 28 09:33:53 2020
@author: dhulls
"""
from __future__ import print_function
from __future__ import absolute_import
from argparse import ArgumentParser
import numpy as nm
import sys
sys.path.append('.')
from sfepy.base.base import IndexedStruct, Struct
from sfepy.discrete import (FieldVariable, Material, Integral, Function,
Equation, Equations, Problem)
from sfepy.discrete.fem import Mesh, FEDomain, Field
from sfepy.terms import Term
from sfepy.discrete.conditions import Conditions, EssentialBC, InitialCondition
from sfepy.solvers.ls import ScipyDirect
from sfepy.solvers.nls import Newton
from sfepy.postprocess.viewer import Viewer
from sfepy.postprocess.probes_vtk import ProbeFromFile, Probe
import numpy as np
helps = {
'show' : 'show the results figure',
}
from sfepy import data_dir
parser = ArgumentParser()
parser.add_argument('--version', action='version', version='%(prog)s')
parser.add_argument('-s', '--show',
action="store_true", dest='show',
default=False, help=helps['show'])
options = parser.parse_args()
mesh = Mesh.from_file(data_dir + '/meshes/3d/fluid_mesh.inp')
domain = FEDomain('domain', mesh)
omega = domain.create_region('Omega', 'all')
field_1 = Field.from_args(name='3_velocity', dtype=nm.float64, shape=3, region=omega, approx_order=1)
field_2 = Field.from_args(name='pressure', dtype=nm.float64, shape=1, region=omega, approx_order=1)
region_0 = domain.create_region(name='Walls1', select='vertices in (y < -0.049)', kind='facet')
region_1 = domain.create_region(name='Walls2', select='vertices in (y > 0.049)', kind='facet')
region_2 = domain.create_region(name='Inlet', select='vertices in (x < -0.499)', kind='facet')
region_3 = domain.create_region(name='Outlet', select='vertices in (x > -0.499)', kind='facet')
ebc_1 = EssentialBC(name='Walls1', region=region_0, dofs={'u.[0,1,2]' : 0.0})
ebc_2 = EssentialBC(name='Walls2', region=region_1, dofs={'u.[0,1,2]' : 0.0})
ebc_3 = EssentialBC(name='Inlet', region=region_2, dofs={'u.0' : 1.0, 'u.[1,2]' : 0.0})
ebc_4 = EssentialBC(name='Outlet', region=region_3, dofs={'p':0.0, 'u.[1,2]' : 0.0})
viscosity = | Material(name='viscosity', value=1.25e-3) | sfepy.discrete.Material |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Mon Dec 28 09:33:53 2020
@author: dhulls
"""
from __future__ import print_function
from __future__ import absolute_import
from argparse import ArgumentParser
import numpy as nm
import sys
sys.path.append('.')
from sfepy.base.base import IndexedStruct, Struct
from sfepy.discrete import (FieldVariable, Material, Integral, Function,
Equation, Equations, Problem)
from sfepy.discrete.fem import Mesh, FEDomain, Field
from sfepy.terms import Term
from sfepy.discrete.conditions import Conditions, EssentialBC, InitialCondition
from sfepy.solvers.ls import ScipyDirect
from sfepy.solvers.nls import Newton
from sfepy.postprocess.viewer import Viewer
from sfepy.postprocess.probes_vtk import ProbeFromFile, Probe
import numpy as np
helps = {
'show' : 'show the results figure',
}
from sfepy import data_dir
parser = ArgumentParser()
parser.add_argument('--version', action='version', version='%(prog)s')
parser.add_argument('-s', '--show',
action="store_true", dest='show',
default=False, help=helps['show'])
options = parser.parse_args()
mesh = Mesh.from_file(data_dir + '/meshes/3d/fluid_mesh.inp')
domain = FEDomain('domain', mesh)
omega = domain.create_region('Omega', 'all')
field_1 = Field.from_args(name='3_velocity', dtype=nm.float64, shape=3, region=omega, approx_order=1)
field_2 = Field.from_args(name='pressure', dtype=nm.float64, shape=1, region=omega, approx_order=1)
region_0 = domain.create_region(name='Walls1', select='vertices in (y < -0.049)', kind='facet')
region_1 = domain.create_region(name='Walls2', select='vertices in (y > 0.049)', kind='facet')
region_2 = domain.create_region(name='Inlet', select='vertices in (x < -0.499)', kind='facet')
region_3 = domain.create_region(name='Outlet', select='vertices in (x > -0.499)', kind='facet')
ebc_1 = EssentialBC(name='Walls1', region=region_0, dofs={'u.[0,1,2]' : 0.0})
ebc_2 = EssentialBC(name='Walls2', region=region_1, dofs={'u.[0,1,2]' : 0.0})
ebc_3 = EssentialBC(name='Inlet', region=region_2, dofs={'u.0' : 1.0, 'u.[1,2]' : 0.0})
ebc_4 = EssentialBC(name='Outlet', region=region_3, dofs={'p':0.0, 'u.[1,2]' : 0.0})
viscosity = Material(name='viscosity', value=1.25e-3)
variable_1 = | FieldVariable('u', 'unknown', field_1) | sfepy.discrete.FieldVariable |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Mon Dec 28 09:33:53 2020
@author: dhulls
"""
from __future__ import print_function
from __future__ import absolute_import
from argparse import ArgumentParser
import numpy as nm
import sys
sys.path.append('.')
from sfepy.base.base import IndexedStruct, Struct
from sfepy.discrete import (FieldVariable, Material, Integral, Function,
Equation, Equations, Problem)
from sfepy.discrete.fem import Mesh, FEDomain, Field
from sfepy.terms import Term
from sfepy.discrete.conditions import Conditions, EssentialBC, InitialCondition
from sfepy.solvers.ls import ScipyDirect
from sfepy.solvers.nls import Newton
from sfepy.postprocess.viewer import Viewer
from sfepy.postprocess.probes_vtk import ProbeFromFile, Probe
import numpy as np
helps = {
'show' : 'show the results figure',
}
from sfepy import data_dir
parser = ArgumentParser()
parser.add_argument('--version', action='version', version='%(prog)s')
parser.add_argument('-s', '--show',
action="store_true", dest='show',
default=False, help=helps['show'])
options = parser.parse_args()
mesh = Mesh.from_file(data_dir + '/meshes/3d/fluid_mesh.inp')
domain = FEDomain('domain', mesh)
omega = domain.create_region('Omega', 'all')
field_1 = Field.from_args(name='3_velocity', dtype=nm.float64, shape=3, region=omega, approx_order=1)
field_2 = Field.from_args(name='pressure', dtype=nm.float64, shape=1, region=omega, approx_order=1)
region_0 = domain.create_region(name='Walls1', select='vertices in (y < -0.049)', kind='facet')
region_1 = domain.create_region(name='Walls2', select='vertices in (y > 0.049)', kind='facet')
region_2 = domain.create_region(name='Inlet', select='vertices in (x < -0.499)', kind='facet')
region_3 = domain.create_region(name='Outlet', select='vertices in (x > -0.499)', kind='facet')
ebc_1 = EssentialBC(name='Walls1', region=region_0, dofs={'u.[0,1,2]' : 0.0})
ebc_2 = EssentialBC(name='Walls2', region=region_1, dofs={'u.[0,1,2]' : 0.0})
ebc_3 = EssentialBC(name='Inlet', region=region_2, dofs={'u.0' : 1.0, 'u.[1,2]' : 0.0})
ebc_4 = EssentialBC(name='Outlet', region=region_3, dofs={'p':0.0, 'u.[1,2]' : 0.0})
viscosity = Material(name='viscosity', value=1.25e-3)
variable_1 = FieldVariable('u', 'unknown', field_1)
variable_2 = | FieldVariable(name='v', kind='test', field=field_1, primary_var_name='u') | sfepy.discrete.FieldVariable |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Mon Dec 28 09:33:53 2020
@author: dhulls
"""
from __future__ import print_function
from __future__ import absolute_import
from argparse import ArgumentParser
import numpy as nm
import sys
sys.path.append('.')
from sfepy.base.base import IndexedStruct, Struct
from sfepy.discrete import (FieldVariable, Material, Integral, Function,
Equation, Equations, Problem)
from sfepy.discrete.fem import Mesh, FEDomain, Field
from sfepy.terms import Term
from sfepy.discrete.conditions import Conditions, EssentialBC, InitialCondition
from sfepy.solvers.ls import ScipyDirect
from sfepy.solvers.nls import Newton
from sfepy.postprocess.viewer import Viewer
from sfepy.postprocess.probes_vtk import ProbeFromFile, Probe
import numpy as np
helps = {
'show' : 'show the results figure',
}
from sfepy import data_dir
parser = ArgumentParser()
parser.add_argument('--version', action='version', version='%(prog)s')
parser.add_argument('-s', '--show',
action="store_true", dest='show',
default=False, help=helps['show'])
options = parser.parse_args()
mesh = Mesh.from_file(data_dir + '/meshes/3d/fluid_mesh.inp')
domain = FEDomain('domain', mesh)
omega = domain.create_region('Omega', 'all')
field_1 = Field.from_args(name='3_velocity', dtype=nm.float64, shape=3, region=omega, approx_order=1)
field_2 = Field.from_args(name='pressure', dtype=nm.float64, shape=1, region=omega, approx_order=1)
region_0 = domain.create_region(name='Walls1', select='vertices in (y < -0.049)', kind='facet')
region_1 = domain.create_region(name='Walls2', select='vertices in (y > 0.049)', kind='facet')
region_2 = domain.create_region(name='Inlet', select='vertices in (x < -0.499)', kind='facet')
region_3 = domain.create_region(name='Outlet', select='vertices in (x > -0.499)', kind='facet')
ebc_1 = EssentialBC(name='Walls1', region=region_0, dofs={'u.[0,1,2]' : 0.0})
ebc_2 = EssentialBC(name='Walls2', region=region_1, dofs={'u.[0,1,2]' : 0.0})
ebc_3 = EssentialBC(name='Inlet', region=region_2, dofs={'u.0' : 1.0, 'u.[1,2]' : 0.0})
ebc_4 = EssentialBC(name='Outlet', region=region_3, dofs={'p':0.0, 'u.[1,2]' : 0.0})
viscosity = Material(name='viscosity', value=1.25e-3)
variable_1 = FieldVariable('u', 'unknown', field_1)
variable_2 = FieldVariable(name='v', kind='test', field=field_1, primary_var_name='u')
variable_3 = | FieldVariable(name='p', kind='unknown', field=field_2) | sfepy.discrete.FieldVariable |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Mon Dec 28 09:33:53 2020
@author: dhulls
"""
from __future__ import print_function
from __future__ import absolute_import
from argparse import ArgumentParser
import numpy as nm
import sys
sys.path.append('.')
from sfepy.base.base import IndexedStruct, Struct
from sfepy.discrete import (FieldVariable, Material, Integral, Function,
Equation, Equations, Problem)
from sfepy.discrete.fem import Mesh, FEDomain, Field
from sfepy.terms import Term
from sfepy.discrete.conditions import Conditions, EssentialBC, InitialCondition
from sfepy.solvers.ls import ScipyDirect
from sfepy.solvers.nls import Newton
from sfepy.postprocess.viewer import Viewer
from sfepy.postprocess.probes_vtk import ProbeFromFile, Probe
import numpy as np
helps = {
'show' : 'show the results figure',
}
from sfepy import data_dir
parser = ArgumentParser()
parser.add_argument('--version', action='version', version='%(prog)s')
parser.add_argument('-s', '--show',
action="store_true", dest='show',
default=False, help=helps['show'])
options = parser.parse_args()
mesh = Mesh.from_file(data_dir + '/meshes/3d/fluid_mesh.inp')
domain = FEDomain('domain', mesh)
omega = domain.create_region('Omega', 'all')
field_1 = Field.from_args(name='3_velocity', dtype=nm.float64, shape=3, region=omega, approx_order=1)
field_2 = Field.from_args(name='pressure', dtype=nm.float64, shape=1, region=omega, approx_order=1)
region_0 = domain.create_region(name='Walls1', select='vertices in (y < -0.049)', kind='facet')
region_1 = domain.create_region(name='Walls2', select='vertices in (y > 0.049)', kind='facet')
region_2 = domain.create_region(name='Inlet', select='vertices in (x < -0.499)', kind='facet')
region_3 = domain.create_region(name='Outlet', select='vertices in (x > -0.499)', kind='facet')
ebc_1 = EssentialBC(name='Walls1', region=region_0, dofs={'u.[0,1,2]' : 0.0})
ebc_2 = EssentialBC(name='Walls2', region=region_1, dofs={'u.[0,1,2]' : 0.0})
ebc_3 = EssentialBC(name='Inlet', region=region_2, dofs={'u.0' : 1.0, 'u.[1,2]' : 0.0})
ebc_4 = EssentialBC(name='Outlet', region=region_3, dofs={'p':0.0, 'u.[1,2]' : 0.0})
viscosity = Material(name='viscosity', value=1.25e-3)
variable_1 = FieldVariable('u', 'unknown', field_1)
variable_2 = FieldVariable(name='v', kind='test', field=field_1, primary_var_name='u')
variable_3 = FieldVariable(name='p', kind='unknown', field=field_2)
variable_4 = | FieldVariable(name='q', kind='test', field=field_2, primary_var_name='p') | sfepy.discrete.FieldVariable |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Mon Dec 28 09:33:53 2020
@author: dhulls
"""
from __future__ import print_function
from __future__ import absolute_import
from argparse import ArgumentParser
import numpy as nm
import sys
sys.path.append('.')
from sfepy.base.base import IndexedStruct, Struct
from sfepy.discrete import (FieldVariable, Material, Integral, Function,
Equation, Equations, Problem)
from sfepy.discrete.fem import Mesh, FEDomain, Field
from sfepy.terms import Term
from sfepy.discrete.conditions import Conditions, EssentialBC, InitialCondition
from sfepy.solvers.ls import ScipyDirect
from sfepy.solvers.nls import Newton
from sfepy.postprocess.viewer import Viewer
from sfepy.postprocess.probes_vtk import ProbeFromFile, Probe
import numpy as np
helps = {
'show' : 'show the results figure',
}
from sfepy import data_dir
parser = ArgumentParser()
parser.add_argument('--version', action='version', version='%(prog)s')
parser.add_argument('-s', '--show',
action="store_true", dest='show',
default=False, help=helps['show'])
options = parser.parse_args()
mesh = Mesh.from_file(data_dir + '/meshes/3d/fluid_mesh.inp')
domain = FEDomain('domain', mesh)
omega = domain.create_region('Omega', 'all')
field_1 = Field.from_args(name='3_velocity', dtype=nm.float64, shape=3, region=omega, approx_order=1)
field_2 = Field.from_args(name='pressure', dtype=nm.float64, shape=1, region=omega, approx_order=1)
region_0 = domain.create_region(name='Walls1', select='vertices in (y < -0.049)', kind='facet')
region_1 = domain.create_region(name='Walls2', select='vertices in (y > 0.049)', kind='facet')
region_2 = domain.create_region(name='Inlet', select='vertices in (x < -0.499)', kind='facet')
region_3 = domain.create_region(name='Outlet', select='vertices in (x > -0.499)', kind='facet')
ebc_1 = EssentialBC(name='Walls1', region=region_0, dofs={'u.[0,1,2]' : 0.0})
ebc_2 = EssentialBC(name='Walls2', region=region_1, dofs={'u.[0,1,2]' : 0.0})
ebc_3 = EssentialBC(name='Inlet', region=region_2, dofs={'u.0' : 1.0, 'u.[1,2]' : 0.0})
ebc_4 = EssentialBC(name='Outlet', region=region_3, dofs={'p':0.0, 'u.[1,2]' : 0.0})
viscosity = Material(name='viscosity', value=1.25e-3)
variable_1 = FieldVariable('u', 'unknown', field_1)
variable_2 = FieldVariable(name='v', kind='test', field=field_1, primary_var_name='u')
variable_3 = FieldVariable(name='p', kind='unknown', field=field_2)
variable_4 = FieldVariable(name='q', kind='test', field=field_2, primary_var_name='p')
integral_1 = | Integral('i1', order=2) | sfepy.discrete.Integral |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Mon Dec 28 09:33:53 2020
@author: dhulls
"""
from __future__ import print_function
from __future__ import absolute_import
from argparse import ArgumentParser
import numpy as nm
import sys
sys.path.append('.')
from sfepy.base.base import IndexedStruct, Struct
from sfepy.discrete import (FieldVariable, Material, Integral, Function,
Equation, Equations, Problem)
from sfepy.discrete.fem import Mesh, FEDomain, Field
from sfepy.terms import Term
from sfepy.discrete.conditions import Conditions, EssentialBC, InitialCondition
from sfepy.solvers.ls import ScipyDirect
from sfepy.solvers.nls import Newton
from sfepy.postprocess.viewer import Viewer
from sfepy.postprocess.probes_vtk import ProbeFromFile, Probe
import numpy as np
helps = {
'show' : 'show the results figure',
}
from sfepy import data_dir
parser = ArgumentParser()
parser.add_argument('--version', action='version', version='%(prog)s')
parser.add_argument('-s', '--show',
action="store_true", dest='show',
default=False, help=helps['show'])
options = parser.parse_args()
mesh = Mesh.from_file(data_dir + '/meshes/3d/fluid_mesh.inp')
domain = FEDomain('domain', mesh)
omega = domain.create_region('Omega', 'all')
field_1 = Field.from_args(name='3_velocity', dtype=nm.float64, shape=3, region=omega, approx_order=1)
field_2 = Field.from_args(name='pressure', dtype=nm.float64, shape=1, region=omega, approx_order=1)
region_0 = domain.create_region(name='Walls1', select='vertices in (y < -0.049)', kind='facet')
region_1 = domain.create_region(name='Walls2', select='vertices in (y > 0.049)', kind='facet')
region_2 = domain.create_region(name='Inlet', select='vertices in (x < -0.499)', kind='facet')
region_3 = domain.create_region(name='Outlet', select='vertices in (x > -0.499)', kind='facet')
ebc_1 = EssentialBC(name='Walls1', region=region_0, dofs={'u.[0,1,2]' : 0.0})
ebc_2 = EssentialBC(name='Walls2', region=region_1, dofs={'u.[0,1,2]' : 0.0})
ebc_3 = EssentialBC(name='Inlet', region=region_2, dofs={'u.0' : 1.0, 'u.[1,2]' : 0.0})
ebc_4 = EssentialBC(name='Outlet', region=region_3, dofs={'p':0.0, 'u.[1,2]' : 0.0})
viscosity = Material(name='viscosity', value=1.25e-3)
variable_1 = FieldVariable('u', 'unknown', field_1)
variable_2 = FieldVariable(name='v', kind='test', field=field_1, primary_var_name='u')
variable_3 = FieldVariable(name='p', kind='unknown', field=field_2)
variable_4 = FieldVariable(name='q', kind='test', field=field_2, primary_var_name='p')
integral_1 = Integral('i1', order=2)
integral_2 = | Integral('i2', order=3) | sfepy.discrete.Integral |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Mon Dec 28 09:33:53 2020
@author: dhulls
"""
from __future__ import print_function
from __future__ import absolute_import
from argparse import ArgumentParser
import numpy as nm
import sys
sys.path.append('.')
from sfepy.base.base import IndexedStruct, Struct
from sfepy.discrete import (FieldVariable, Material, Integral, Function,
Equation, Equations, Problem)
from sfepy.discrete.fem import Mesh, FEDomain, Field
from sfepy.terms import Term
from sfepy.discrete.conditions import Conditions, EssentialBC, InitialCondition
from sfepy.solvers.ls import ScipyDirect
from sfepy.solvers.nls import Newton
from sfepy.postprocess.viewer import Viewer
from sfepy.postprocess.probes_vtk import ProbeFromFile, Probe
import numpy as np
helps = {
'show' : 'show the results figure',
}
from sfepy import data_dir
parser = ArgumentParser()
parser.add_argument('--version', action='version', version='%(prog)s')
parser.add_argument('-s', '--show',
action="store_true", dest='show',
default=False, help=helps['show'])
options = parser.parse_args()
mesh = Mesh.from_file(data_dir + '/meshes/3d/fluid_mesh.inp')
domain = FEDomain('domain', mesh)
omega = domain.create_region('Omega', 'all')
field_1 = Field.from_args(name='3_velocity', dtype=nm.float64, shape=3, region=omega, approx_order=1)
field_2 = Field.from_args(name='pressure', dtype=nm.float64, shape=1, region=omega, approx_order=1)
region_0 = domain.create_region(name='Walls1', select='vertices in (y < -0.049)', kind='facet')
region_1 = domain.create_region(name='Walls2', select='vertices in (y > 0.049)', kind='facet')
region_2 = domain.create_region(name='Inlet', select='vertices in (x < -0.499)', kind='facet')
region_3 = domain.create_region(name='Outlet', select='vertices in (x > -0.499)', kind='facet')
ebc_1 = EssentialBC(name='Walls1', region=region_0, dofs={'u.[0,1,2]' : 0.0})
ebc_2 = EssentialBC(name='Walls2', region=region_1, dofs={'u.[0,1,2]' : 0.0})
ebc_3 = EssentialBC(name='Inlet', region=region_2, dofs={'u.0' : 1.0, 'u.[1,2]' : 0.0})
ebc_4 = EssentialBC(name='Outlet', region=region_3, dofs={'p':0.0, 'u.[1,2]' : 0.0})
viscosity = Material(name='viscosity', value=1.25e-3)
variable_1 = FieldVariable('u', 'unknown', field_1)
variable_2 = FieldVariable(name='v', kind='test', field=field_1, primary_var_name='u')
variable_3 = FieldVariable(name='p', kind='unknown', field=field_2)
variable_4 = FieldVariable(name='q', kind='test', field=field_2, primary_var_name='p')
integral_1 = Integral('i1', order=2)
integral_2 = Integral('i2', order=3)
t1 = Term.new(name='dw_div_grad(viscosity.value, v, u)',
integral=integral_2, region=omega, viscosity=viscosity, v=variable_2, u=variable_1)
t2 = Term.new(name='dw_convect(v, u)',
integral=integral_2, region=omega, v=variable_2, u=variable_1)
t3 = Term.new(name='dw_stokes(v, p)',
integral=integral_1, region=omega, v=variable_2, p=variable_3)
t4 = Term.new(name='dw_stokes(u, q)',
integral=integral_1, region=omega, u=variable_1, q=variable_4)
eq1 = | Equation('balance', t1+t2-t3) | sfepy.discrete.Equation |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Mon Dec 28 09:33:53 2020
@author: dhulls
"""
from __future__ import print_function
from __future__ import absolute_import
from argparse import ArgumentParser
import numpy as nm
import sys
sys.path.append('.')
from sfepy.base.base import IndexedStruct, Struct
from sfepy.discrete import (FieldVariable, Material, Integral, Function,
Equation, Equations, Problem)
from sfepy.discrete.fem import Mesh, FEDomain, Field
from sfepy.terms import Term
from sfepy.discrete.conditions import Conditions, EssentialBC, InitialCondition
from sfepy.solvers.ls import ScipyDirect
from sfepy.solvers.nls import Newton
from sfepy.postprocess.viewer import Viewer
from sfepy.postprocess.probes_vtk import ProbeFromFile, Probe
import numpy as np
helps = {
'show' : 'show the results figure',
}
from sfepy import data_dir
parser = ArgumentParser()
parser.add_argument('--version', action='version', version='%(prog)s')
parser.add_argument('-s', '--show',
action="store_true", dest='show',
default=False, help=helps['show'])
options = parser.parse_args()
mesh = Mesh.from_file(data_dir + '/meshes/3d/fluid_mesh.inp')
domain = FEDomain('domain', mesh)
omega = domain.create_region('Omega', 'all')
field_1 = Field.from_args(name='3_velocity', dtype=nm.float64, shape=3, region=omega, approx_order=1)
field_2 = Field.from_args(name='pressure', dtype=nm.float64, shape=1, region=omega, approx_order=1)
region_0 = domain.create_region(name='Walls1', select='vertices in (y < -0.049)', kind='facet')
region_1 = domain.create_region(name='Walls2', select='vertices in (y > 0.049)', kind='facet')
region_2 = domain.create_region(name='Inlet', select='vertices in (x < -0.499)', kind='facet')
region_3 = domain.create_region(name='Outlet', select='vertices in (x > -0.499)', kind='facet')
ebc_1 = EssentialBC(name='Walls1', region=region_0, dofs={'u.[0,1,2]' : 0.0})
ebc_2 = EssentialBC(name='Walls2', region=region_1, dofs={'u.[0,1,2]' : 0.0})
ebc_3 = EssentialBC(name='Inlet', region=region_2, dofs={'u.0' : 1.0, 'u.[1,2]' : 0.0})
ebc_4 = EssentialBC(name='Outlet', region=region_3, dofs={'p':0.0, 'u.[1,2]' : 0.0})
viscosity = Material(name='viscosity', value=1.25e-3)
variable_1 = FieldVariable('u', 'unknown', field_1)
variable_2 = FieldVariable(name='v', kind='test', field=field_1, primary_var_name='u')
variable_3 = FieldVariable(name='p', kind='unknown', field=field_2)
variable_4 = FieldVariable(name='q', kind='test', field=field_2, primary_var_name='p')
integral_1 = Integral('i1', order=2)
integral_2 = Integral('i2', order=3)
t1 = Term.new(name='dw_div_grad(viscosity.value, v, u)',
integral=integral_2, region=omega, viscosity=viscosity, v=variable_2, u=variable_1)
t2 = Term.new(name='dw_convect(v, u)',
integral=integral_2, region=omega, v=variable_2, u=variable_1)
t3 = Term.new(name='dw_stokes(v, p)',
integral=integral_1, region=omega, v=variable_2, p=variable_3)
t4 = Term.new(name='dw_stokes(u, q)',
integral=integral_1, region=omega, u=variable_1, q=variable_4)
eq1 = Equation('balance', t1+t2-t3)
eq2 = | Equation('incompressibility', t4) | sfepy.discrete.Equation |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Mon Dec 28 09:33:53 2020
@author: dhulls
"""
from __future__ import print_function
from __future__ import absolute_import
from argparse import ArgumentParser
import numpy as nm
import sys
sys.path.append('.')
from sfepy.base.base import IndexedStruct, Struct
from sfepy.discrete import (FieldVariable, Material, Integral, Function,
Equation, Equations, Problem)
from sfepy.discrete.fem import Mesh, FEDomain, Field
from sfepy.terms import Term
from sfepy.discrete.conditions import Conditions, EssentialBC, InitialCondition
from sfepy.solvers.ls import ScipyDirect
from sfepy.solvers.nls import Newton
from sfepy.postprocess.viewer import Viewer
from sfepy.postprocess.probes_vtk import ProbeFromFile, Probe
import numpy as np
helps = {
'show' : 'show the results figure',
}
from sfepy import data_dir
parser = ArgumentParser()
parser.add_argument('--version', action='version', version='%(prog)s')
parser.add_argument('-s', '--show',
action="store_true", dest='show',
default=False, help=helps['show'])
options = parser.parse_args()
mesh = Mesh.from_file(data_dir + '/meshes/3d/fluid_mesh.inp')
domain = FEDomain('domain', mesh)
omega = domain.create_region('Omega', 'all')
field_1 = Field.from_args(name='3_velocity', dtype=nm.float64, shape=3, region=omega, approx_order=1)
field_2 = Field.from_args(name='pressure', dtype=nm.float64, shape=1, region=omega, approx_order=1)
region_0 = domain.create_region(name='Walls1', select='vertices in (y < -0.049)', kind='facet')
region_1 = domain.create_region(name='Walls2', select='vertices in (y > 0.049)', kind='facet')
region_2 = domain.create_region(name='Inlet', select='vertices in (x < -0.499)', kind='facet')
region_3 = domain.create_region(name='Outlet', select='vertices in (x > -0.499)', kind='facet')
ebc_1 = EssentialBC(name='Walls1', region=region_0, dofs={'u.[0,1,2]' : 0.0})
ebc_2 = EssentialBC(name='Walls2', region=region_1, dofs={'u.[0,1,2]' : 0.0})
ebc_3 = EssentialBC(name='Inlet', region=region_2, dofs={'u.0' : 1.0, 'u.[1,2]' : 0.0})
ebc_4 = EssentialBC(name='Outlet', region=region_3, dofs={'p':0.0, 'u.[1,2]' : 0.0})
viscosity = Material(name='viscosity', value=1.25e-3)
variable_1 = FieldVariable('u', 'unknown', field_1)
variable_2 = FieldVariable(name='v', kind='test', field=field_1, primary_var_name='u')
variable_3 = FieldVariable(name='p', kind='unknown', field=field_2)
variable_4 = FieldVariable(name='q', kind='test', field=field_2, primary_var_name='p')
integral_1 = Integral('i1', order=2)
integral_2 = Integral('i2', order=3)
t1 = Term.new(name='dw_div_grad(viscosity.value, v, u)',
integral=integral_2, region=omega, viscosity=viscosity, v=variable_2, u=variable_1)
t2 = Term.new(name='dw_convect(v, u)',
integral=integral_2, region=omega, v=variable_2, u=variable_1)
t3 = Term.new(name='dw_stokes(v, p)',
integral=integral_1, region=omega, v=variable_2, p=variable_3)
t4 = Term.new(name='dw_stokes(u, q)',
integral=integral_1, region=omega, u=variable_1, q=variable_4)
eq1 = Equation('balance', t1+t2-t3)
eq2 = Equation('incompressibility', t4)
eqs = | Equations([eq1,eq2]) | sfepy.discrete.Equations |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Mon Dec 28 09:33:53 2020
@author: dhulls
"""
from __future__ import print_function
from __future__ import absolute_import
from argparse import ArgumentParser
import numpy as nm
import sys
sys.path.append('.')
from sfepy.base.base import IndexedStruct, Struct
from sfepy.discrete import (FieldVariable, Material, Integral, Function,
Equation, Equations, Problem)
from sfepy.discrete.fem import Mesh, FEDomain, Field
from sfepy.terms import Term
from sfepy.discrete.conditions import Conditions, EssentialBC, InitialCondition
from sfepy.solvers.ls import ScipyDirect
from sfepy.solvers.nls import Newton
from sfepy.postprocess.viewer import Viewer
from sfepy.postprocess.probes_vtk import ProbeFromFile, Probe
import numpy as np
helps = {
'show' : 'show the results figure',
}
from sfepy import data_dir
parser = ArgumentParser()
parser.add_argument('--version', action='version', version='%(prog)s')
parser.add_argument('-s', '--show',
action="store_true", dest='show',
default=False, help=helps['show'])
options = parser.parse_args()
mesh = Mesh.from_file(data_dir + '/meshes/3d/fluid_mesh.inp')
domain = FEDomain('domain', mesh)
omega = domain.create_region('Omega', 'all')
field_1 = Field.from_args(name='3_velocity', dtype=nm.float64, shape=3, region=omega, approx_order=1)
field_2 = Field.from_args(name='pressure', dtype=nm.float64, shape=1, region=omega, approx_order=1)
region_0 = domain.create_region(name='Walls1', select='vertices in (y < -0.049)', kind='facet')
region_1 = domain.create_region(name='Walls2', select='vertices in (y > 0.049)', kind='facet')
region_2 = domain.create_region(name='Inlet', select='vertices in (x < -0.499)', kind='facet')
region_3 = domain.create_region(name='Outlet', select='vertices in (x > -0.499)', kind='facet')
ebc_1 = EssentialBC(name='Walls1', region=region_0, dofs={'u.[0,1,2]' : 0.0})
ebc_2 = EssentialBC(name='Walls2', region=region_1, dofs={'u.[0,1,2]' : 0.0})
ebc_3 = EssentialBC(name='Inlet', region=region_2, dofs={'u.0' : 1.0, 'u.[1,2]' : 0.0})
ebc_4 = EssentialBC(name='Outlet', region=region_3, dofs={'p':0.0, 'u.[1,2]' : 0.0})
viscosity = Material(name='viscosity', value=1.25e-3)
variable_1 = FieldVariable('u', 'unknown', field_1)
variable_2 = FieldVariable(name='v', kind='test', field=field_1, primary_var_name='u')
variable_3 = FieldVariable(name='p', kind='unknown', field=field_2)
variable_4 = FieldVariable(name='q', kind='test', field=field_2, primary_var_name='p')
integral_1 = Integral('i1', order=2)
integral_2 = Integral('i2', order=3)
t1 = Term.new(name='dw_div_grad(viscosity.value, v, u)',
integral=integral_2, region=omega, viscosity=viscosity, v=variable_2, u=variable_1)
t2 = Term.new(name='dw_convect(v, u)',
integral=integral_2, region=omega, v=variable_2, u=variable_1)
t3 = Term.new(name='dw_stokes(v, p)',
integral=integral_1, region=omega, v=variable_2, p=variable_3)
t4 = Term.new(name='dw_stokes(u, q)',
integral=integral_1, region=omega, u=variable_1, q=variable_4)
eq1 = Equation('balance', t1+t2-t3)
eq2 = Equation('incompressibility', t4)
eqs = Equations([eq1,eq2])
ls = | ScipyDirect({}) | sfepy.solvers.ls.ScipyDirect |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Mon Dec 28 09:33:53 2020
@author: dhulls
"""
from __future__ import print_function
from __future__ import absolute_import
from argparse import ArgumentParser
import numpy as nm
import sys
sys.path.append('.')
from sfepy.base.base import IndexedStruct, Struct
from sfepy.discrete import (FieldVariable, Material, Integral, Function,
Equation, Equations, Problem)
from sfepy.discrete.fem import Mesh, FEDomain, Field
from sfepy.terms import Term
from sfepy.discrete.conditions import Conditions, EssentialBC, InitialCondition
from sfepy.solvers.ls import ScipyDirect
from sfepy.solvers.nls import Newton
from sfepy.postprocess.viewer import Viewer
from sfepy.postprocess.probes_vtk import ProbeFromFile, Probe
import numpy as np
helps = {
'show' : 'show the results figure',
}
from sfepy import data_dir
parser = ArgumentParser()
parser.add_argument('--version', action='version', version='%(prog)s')
parser.add_argument('-s', '--show',
action="store_true", dest='show',
default=False, help=helps['show'])
options = parser.parse_args()
mesh = Mesh.from_file(data_dir + '/meshes/3d/fluid_mesh.inp')
domain = FEDomain('domain', mesh)
omega = domain.create_region('Omega', 'all')
field_1 = Field.from_args(name='3_velocity', dtype=nm.float64, shape=3, region=omega, approx_order=1)
field_2 = Field.from_args(name='pressure', dtype=nm.float64, shape=1, region=omega, approx_order=1)
region_0 = domain.create_region(name='Walls1', select='vertices in (y < -0.049)', kind='facet')
region_1 = domain.create_region(name='Walls2', select='vertices in (y > 0.049)', kind='facet')
region_2 = domain.create_region(name='Inlet', select='vertices in (x < -0.499)', kind='facet')
region_3 = domain.create_region(name='Outlet', select='vertices in (x > -0.499)', kind='facet')
ebc_1 = EssentialBC(name='Walls1', region=region_0, dofs={'u.[0,1,2]' : 0.0})
ebc_2 = EssentialBC(name='Walls2', region=region_1, dofs={'u.[0,1,2]' : 0.0})
ebc_3 = EssentialBC(name='Inlet', region=region_2, dofs={'u.0' : 1.0, 'u.[1,2]' : 0.0})
ebc_4 = EssentialBC(name='Outlet', region=region_3, dofs={'p':0.0, 'u.[1,2]' : 0.0})
viscosity = Material(name='viscosity', value=1.25e-3)
variable_1 = FieldVariable('u', 'unknown', field_1)
variable_2 = FieldVariable(name='v', kind='test', field=field_1, primary_var_name='u')
variable_3 = FieldVariable(name='p', kind='unknown', field=field_2)
variable_4 = FieldVariable(name='q', kind='test', field=field_2, primary_var_name='p')
integral_1 = Integral('i1', order=2)
integral_2 = Integral('i2', order=3)
t1 = Term.new(name='dw_div_grad(viscosity.value, v, u)',
integral=integral_2, region=omega, viscosity=viscosity, v=variable_2, u=variable_1)
t2 = Term.new(name='dw_convect(v, u)',
integral=integral_2, region=omega, v=variable_2, u=variable_1)
t3 = Term.new(name='dw_stokes(v, p)',
integral=integral_1, region=omega, v=variable_2, p=variable_3)
t4 = Term.new(name='dw_stokes(u, q)',
integral=integral_1, region=omega, u=variable_1, q=variable_4)
eq1 = Equation('balance', t1+t2-t3)
eq2 = Equation('incompressibility', t4)
eqs = Equations([eq1,eq2])
ls = ScipyDirect({})
nls_status = | IndexedStruct() | sfepy.base.base.IndexedStruct |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Mon Dec 28 09:33:53 2020
@author: dhulls
"""
from __future__ import print_function
from __future__ import absolute_import
from argparse import ArgumentParser
import numpy as nm
import sys
sys.path.append('.')
from sfepy.base.base import IndexedStruct, Struct
from sfepy.discrete import (FieldVariable, Material, Integral, Function,
Equation, Equations, Problem)
from sfepy.discrete.fem import Mesh, FEDomain, Field
from sfepy.terms import Term
from sfepy.discrete.conditions import Conditions, EssentialBC, InitialCondition
from sfepy.solvers.ls import ScipyDirect
from sfepy.solvers.nls import Newton
from sfepy.postprocess.viewer import Viewer
from sfepy.postprocess.probes_vtk import ProbeFromFile, Probe
import numpy as np
helps = {
'show' : 'show the results figure',
}
from sfepy import data_dir
parser = ArgumentParser()
parser.add_argument('--version', action='version', version='%(prog)s')
parser.add_argument('-s', '--show',
action="store_true", dest='show',
default=False, help=helps['show'])
options = parser.parse_args()
mesh = Mesh.from_file(data_dir + '/meshes/3d/fluid_mesh.inp')
domain = FEDomain('domain', mesh)
omega = domain.create_region('Omega', 'all')
field_1 = Field.from_args(name='3_velocity', dtype=nm.float64, shape=3, region=omega, approx_order=1)
field_2 = Field.from_args(name='pressure', dtype=nm.float64, shape=1, region=omega, approx_order=1)
region_0 = domain.create_region(name='Walls1', select='vertices in (y < -0.049)', kind='facet')
region_1 = domain.create_region(name='Walls2', select='vertices in (y > 0.049)', kind='facet')
region_2 = domain.create_region(name='Inlet', select='vertices in (x < -0.499)', kind='facet')
region_3 = domain.create_region(name='Outlet', select='vertices in (x > -0.499)', kind='facet')
ebc_1 = EssentialBC(name='Walls1', region=region_0, dofs={'u.[0,1,2]' : 0.0})
ebc_2 = EssentialBC(name='Walls2', region=region_1, dofs={'u.[0,1,2]' : 0.0})
ebc_3 = EssentialBC(name='Inlet', region=region_2, dofs={'u.0' : 1.0, 'u.[1,2]' : 0.0})
ebc_4 = EssentialBC(name='Outlet', region=region_3, dofs={'p':0.0, 'u.[1,2]' : 0.0})
viscosity = Material(name='viscosity', value=1.25e-3)
variable_1 = FieldVariable('u', 'unknown', field_1)
variable_2 = FieldVariable(name='v', kind='test', field=field_1, primary_var_name='u')
variable_3 = FieldVariable(name='p', kind='unknown', field=field_2)
variable_4 = FieldVariable(name='q', kind='test', field=field_2, primary_var_name='p')
integral_1 = Integral('i1', order=2)
integral_2 = Integral('i2', order=3)
t1 = Term.new(name='dw_div_grad(viscosity.value, v, u)',
integral=integral_2, region=omega, viscosity=viscosity, v=variable_2, u=variable_1)
t2 = Term.new(name='dw_convect(v, u)',
integral=integral_2, region=omega, v=variable_2, u=variable_1)
t3 = Term.new(name='dw_stokes(v, p)',
integral=integral_1, region=omega, v=variable_2, p=variable_3)
t4 = Term.new(name='dw_stokes(u, q)',
integral=integral_1, region=omega, u=variable_1, q=variable_4)
eq1 = Equation('balance', t1+t2-t3)
eq2 = Equation('incompressibility', t4)
eqs = Equations([eq1,eq2])
ls = ScipyDirect({})
nls_status = IndexedStruct()
nls = | Newton({'i_max' : 20, 'eps_a' : 1e-8, 'eps_r' : 1.0, 'macheps' : 1e-16, 'lin_red' : 1e-2, 'ls_red' : 0.1, 'ls_red_warp' : 0.001, 'ls_on' : 0.99999, 'ls_min' : 1e-5, 'check' : 0, 'delta' : 1e-6}, lin_solver=ls, status=nls_status) | sfepy.solvers.nls.Newton |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Mon Dec 28 09:33:53 2020
@author: dhulls
"""
from __future__ import print_function
from __future__ import absolute_import
from argparse import ArgumentParser
import numpy as nm
import sys
sys.path.append('.')
from sfepy.base.base import IndexedStruct, Struct
from sfepy.discrete import (FieldVariable, Material, Integral, Function,
Equation, Equations, Problem)
from sfepy.discrete.fem import Mesh, FEDomain, Field
from sfepy.terms import Term
from sfepy.discrete.conditions import Conditions, EssentialBC, InitialCondition
from sfepy.solvers.ls import ScipyDirect
from sfepy.solvers.nls import Newton
from sfepy.postprocess.viewer import Viewer
from sfepy.postprocess.probes_vtk import ProbeFromFile, Probe
import numpy as np
helps = {
'show' : 'show the results figure',
}
from sfepy import data_dir
parser = ArgumentParser()
parser.add_argument('--version', action='version', version='%(prog)s')
parser.add_argument('-s', '--show',
action="store_true", dest='show',
default=False, help=helps['show'])
options = parser.parse_args()
mesh = Mesh.from_file(data_dir + '/meshes/3d/fluid_mesh.inp')
domain = FEDomain('domain', mesh)
omega = domain.create_region('Omega', 'all')
field_1 = Field.from_args(name='3_velocity', dtype=nm.float64, shape=3, region=omega, approx_order=1)
field_2 = Field.from_args(name='pressure', dtype=nm.float64, shape=1, region=omega, approx_order=1)
region_0 = domain.create_region(name='Walls1', select='vertices in (y < -0.049)', kind='facet')
region_1 = domain.create_region(name='Walls2', select='vertices in (y > 0.049)', kind='facet')
region_2 = domain.create_region(name='Inlet', select='vertices in (x < -0.499)', kind='facet')
region_3 = domain.create_region(name='Outlet', select='vertices in (x > -0.499)', kind='facet')
ebc_1 = EssentialBC(name='Walls1', region=region_0, dofs={'u.[0,1,2]' : 0.0})
ebc_2 = EssentialBC(name='Walls2', region=region_1, dofs={'u.[0,1,2]' : 0.0})
ebc_3 = EssentialBC(name='Inlet', region=region_2, dofs={'u.0' : 1.0, 'u.[1,2]' : 0.0})
ebc_4 = EssentialBC(name='Outlet', region=region_3, dofs={'p':0.0, 'u.[1,2]' : 0.0})
viscosity = Material(name='viscosity', value=1.25e-3)
variable_1 = FieldVariable('u', 'unknown', field_1)
variable_2 = FieldVariable(name='v', kind='test', field=field_1, primary_var_name='u')
variable_3 = FieldVariable(name='p', kind='unknown', field=field_2)
variable_4 = FieldVariable(name='q', kind='test', field=field_2, primary_var_name='p')
integral_1 = Integral('i1', order=2)
integral_2 = Integral('i2', order=3)
t1 = Term.new(name='dw_div_grad(viscosity.value, v, u)',
integral=integral_2, region=omega, viscosity=viscosity, v=variable_2, u=variable_1)
t2 = Term.new(name='dw_convect(v, u)',
integral=integral_2, region=omega, v=variable_2, u=variable_1)
t3 = Term.new(name='dw_stokes(v, p)',
integral=integral_1, region=omega, v=variable_2, p=variable_3)
t4 = Term.new(name='dw_stokes(u, q)',
integral=integral_1, region=omega, u=variable_1, q=variable_4)
eq1 = Equation('balance', t1+t2-t3)
eq2 = Equation('incompressibility', t4)
eqs = Equations([eq1,eq2])
ls = ScipyDirect({})
nls_status = IndexedStruct()
nls = Newton({'i_max' : 20, 'eps_a' : 1e-8, 'eps_r' : 1.0, 'macheps' : 1e-16, 'lin_red' : 1e-2, 'ls_red' : 0.1, 'ls_red_warp' : 0.001, 'ls_on' : 0.99999, 'ls_min' : 1e-5, 'check' : 0, 'delta' : 1e-6}, lin_solver=ls, status=nls_status)
pb = | Problem('Navier-Stokes', equations=eqs) | sfepy.discrete.Problem |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Mon Dec 28 09:33:53 2020
@author: dhulls
"""
from __future__ import print_function
from __future__ import absolute_import
from argparse import ArgumentParser
import numpy as nm
import sys
sys.path.append('.')
from sfepy.base.base import IndexedStruct, Struct
from sfepy.discrete import (FieldVariable, Material, Integral, Function,
Equation, Equations, Problem)
from sfepy.discrete.fem import Mesh, FEDomain, Field
from sfepy.terms import Term
from sfepy.discrete.conditions import Conditions, EssentialBC, InitialCondition
from sfepy.solvers.ls import ScipyDirect
from sfepy.solvers.nls import Newton
from sfepy.postprocess.viewer import Viewer
from sfepy.postprocess.probes_vtk import ProbeFromFile, Probe
import numpy as np
helps = {
'show' : 'show the results figure',
}
from sfepy import data_dir
parser = ArgumentParser()
parser.add_argument('--version', action='version', version='%(prog)s')
parser.add_argument('-s', '--show',
action="store_true", dest='show',
default=False, help=helps['show'])
options = parser.parse_args()
mesh = Mesh.from_file(data_dir + '/meshes/3d/fluid_mesh.inp')
domain = FEDomain('domain', mesh)
omega = domain.create_region('Omega', 'all')
field_1 = Field.from_args(name='3_velocity', dtype=nm.float64, shape=3, region=omega, approx_order=1)
field_2 = Field.from_args(name='pressure', dtype=nm.float64, shape=1, region=omega, approx_order=1)
region_0 = domain.create_region(name='Walls1', select='vertices in (y < -0.049)', kind='facet')
region_1 = domain.create_region(name='Walls2', select='vertices in (y > 0.049)', kind='facet')
region_2 = domain.create_region(name='Inlet', select='vertices in (x < -0.499)', kind='facet')
region_3 = domain.create_region(name='Outlet', select='vertices in (x > -0.499)', kind='facet')
ebc_1 = EssentialBC(name='Walls1', region=region_0, dofs={'u.[0,1,2]' : 0.0})
ebc_2 = EssentialBC(name='Walls2', region=region_1, dofs={'u.[0,1,2]' : 0.0})
ebc_3 = EssentialBC(name='Inlet', region=region_2, dofs={'u.0' : 1.0, 'u.[1,2]' : 0.0})
ebc_4 = EssentialBC(name='Outlet', region=region_3, dofs={'p':0.0, 'u.[1,2]' : 0.0})
viscosity = Material(name='viscosity', value=1.25e-3)
variable_1 = FieldVariable('u', 'unknown', field_1)
variable_2 = FieldVariable(name='v', kind='test', field=field_1, primary_var_name='u')
variable_3 = FieldVariable(name='p', kind='unknown', field=field_2)
variable_4 = FieldVariable(name='q', kind='test', field=field_2, primary_var_name='p')
integral_1 = Integral('i1', order=2)
integral_2 = Integral('i2', order=3)
t1 = Term.new(name='dw_div_grad(viscosity.value, v, u)',
integral=integral_2, region=omega, viscosity=viscosity, v=variable_2, u=variable_1)
t2 = Term.new(name='dw_convect(v, u)',
integral=integral_2, region=omega, v=variable_2, u=variable_1)
t3 = Term.new(name='dw_stokes(v, p)',
integral=integral_1, region=omega, v=variable_2, p=variable_3)
t4 = Term.new(name='dw_stokes(u, q)',
integral=integral_1, region=omega, u=variable_1, q=variable_4)
eq1 = Equation('balance', t1+t2-t3)
eq2 = Equation('incompressibility', t4)
eqs = Equations([eq1,eq2])
ls = ScipyDirect({})
nls_status = IndexedStruct()
nls = Newton({'i_max' : 20, 'eps_a' : 1e-8, 'eps_r' : 1.0, 'macheps' : 1e-16, 'lin_red' : 1e-2, 'ls_red' : 0.1, 'ls_red_warp' : 0.001, 'ls_on' : 0.99999, 'ls_min' : 1e-5, 'check' : 0, 'delta' : 1e-6}, lin_solver=ls, status=nls_status)
pb = Problem('Navier-Stokes', equations=eqs)
pb.set_bcs(ebcs=Conditions([ebc_1, ebc_2, ebc_3]))
pb.set_solver(nls)
status = | IndexedStruct() | sfepy.base.base.IndexedStruct |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Mon Dec 28 09:33:53 2020
@author: dhulls
"""
from __future__ import print_function
from __future__ import absolute_import
from argparse import ArgumentParser
import numpy as nm
import sys
sys.path.append('.')
from sfepy.base.base import IndexedStruct, Struct
from sfepy.discrete import (FieldVariable, Material, Integral, Function,
Equation, Equations, Problem)
from sfepy.discrete.fem import Mesh, FEDomain, Field
from sfepy.terms import Term
from sfepy.discrete.conditions import Conditions, EssentialBC, InitialCondition
from sfepy.solvers.ls import ScipyDirect
from sfepy.solvers.nls import Newton
from sfepy.postprocess.viewer import Viewer
from sfepy.postprocess.probes_vtk import ProbeFromFile, Probe
import numpy as np
helps = {
'show' : 'show the results figure',
}
from sfepy import data_dir
parser = ArgumentParser()
parser.add_argument('--version', action='version', version='%(prog)s')
parser.add_argument('-s', '--show',
action="store_true", dest='show',
default=False, help=helps['show'])
options = parser.parse_args()
mesh = Mesh.from_file(data_dir + '/meshes/3d/fluid_mesh.inp')
domain = FEDomain('domain', mesh)
omega = domain.create_region('Omega', 'all')
field_1 = Field.from_args(name='3_velocity', dtype=nm.float64, shape=3, region=omega, approx_order=1)
field_2 = Field.from_args(name='pressure', dtype=nm.float64, shape=1, region=omega, approx_order=1)
region_0 = domain.create_region(name='Walls1', select='vertices in (y < -0.049)', kind='facet')
region_1 = domain.create_region(name='Walls2', select='vertices in (y > 0.049)', kind='facet')
region_2 = domain.create_region(name='Inlet', select='vertices in (x < -0.499)', kind='facet')
region_3 = domain.create_region(name='Outlet', select='vertices in (x > -0.499)', kind='facet')
ebc_1 = EssentialBC(name='Walls1', region=region_0, dofs={'u.[0,1,2]' : 0.0})
ebc_2 = EssentialBC(name='Walls2', region=region_1, dofs={'u.[0,1,2]' : 0.0})
ebc_3 = EssentialBC(name='Inlet', region=region_2, dofs={'u.0' : 1.0, 'u.[1,2]' : 0.0})
ebc_4 = EssentialBC(name='Outlet', region=region_3, dofs={'p':0.0, 'u.[1,2]' : 0.0})
viscosity = Material(name='viscosity', value=1.25e-3)
variable_1 = FieldVariable('u', 'unknown', field_1)
variable_2 = FieldVariable(name='v', kind='test', field=field_1, primary_var_name='u')
variable_3 = FieldVariable(name='p', kind='unknown', field=field_2)
variable_4 = FieldVariable(name='q', kind='test', field=field_2, primary_var_name='p')
integral_1 = Integral('i1', order=2)
integral_2 = Integral('i2', order=3)
t1 = Term.new(name='dw_div_grad(viscosity.value, v, u)',
integral=integral_2, region=omega, viscosity=viscosity, v=variable_2, u=variable_1)
t2 = Term.new(name='dw_convect(v, u)',
integral=integral_2, region=omega, v=variable_2, u=variable_1)
t3 = Term.new(name='dw_stokes(v, p)',
integral=integral_1, region=omega, v=variable_2, p=variable_3)
t4 = Term.new(name='dw_stokes(u, q)',
integral=integral_1, region=omega, u=variable_1, q=variable_4)
eq1 = Equation('balance', t1+t2-t3)
eq2 = Equation('incompressibility', t4)
eqs = Equations([eq1,eq2])
ls = ScipyDirect({})
nls_status = IndexedStruct()
nls = Newton({'i_max' : 20, 'eps_a' : 1e-8, 'eps_r' : 1.0, 'macheps' : 1e-16, 'lin_red' : 1e-2, 'ls_red' : 0.1, 'ls_red_warp' : 0.001, 'ls_on' : 0.99999, 'ls_min' : 1e-5, 'check' : 0, 'delta' : 1e-6}, lin_solver=ls, status=nls_status)
pb = Problem('Navier-Stokes', equations=eqs)
pb.set_bcs(ebcs=Conditions([ebc_1, ebc_2, ebc_3]))
pb.set_solver(nls)
status = IndexedStruct()
state = pb.solve(status=status, save_results=True)
out = state.create_output_dict()
pb.save_state('Navier_Stokes.vtk', out=out)
view = | Viewer('Navier_Stokes.vtk') | sfepy.postprocess.viewer.Viewer |
#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Mon Dec 28 09:33:53 2020
@author: dhulls
"""
from __future__ import print_function
from __future__ import absolute_import
from argparse import ArgumentParser
import numpy as nm
import sys
sys.path.append('.')
from sfepy.base.base import IndexedStruct, Struct
from sfepy.discrete import (FieldVariable, Material, Integral, Function,
Equation, Equations, Problem)
from sfepy.discrete.fem import Mesh, FEDomain, Field
from sfepy.terms import Term
from sfepy.discrete.conditions import Conditions, EssentialBC, InitialCondition
from sfepy.solvers.ls import ScipyDirect
from sfepy.solvers.nls import Newton
from sfepy.postprocess.viewer import Viewer
from sfepy.postprocess.probes_vtk import ProbeFromFile, Probe
import numpy as np
helps = {
'show' : 'show the results figure',
}
from sfepy import data_dir
parser = ArgumentParser()
parser.add_argument('--version', action='version', version='%(prog)s')
parser.add_argument('-s', '--show',
action="store_true", dest='show',
default=False, help=helps['show'])
options = parser.parse_args()
mesh = Mesh.from_file(data_dir + '/meshes/3d/fluid_mesh.inp')
domain = FEDomain('domain', mesh)
omega = domain.create_region('Omega', 'all')
field_1 = Field.from_args(name='3_velocity', dtype=nm.float64, shape=3, region=omega, approx_order=1)
field_2 = Field.from_args(name='pressure', dtype=nm.float64, shape=1, region=omega, approx_order=1)
region_0 = domain.create_region(name='Walls1', select='vertices in (y < -0.049)', kind='facet')
region_1 = domain.create_region(name='Walls2', select='vertices in (y > 0.049)', kind='facet')
region_2 = domain.create_region(name='Inlet', select='vertices in (x < -0.499)', kind='facet')
region_3 = domain.create_region(name='Outlet', select='vertices in (x > -0.499)', kind='facet')
ebc_1 = EssentialBC(name='Walls1', region=region_0, dofs={'u.[0,1,2]' : 0.0})
ebc_2 = EssentialBC(name='Walls2', region=region_1, dofs={'u.[0,1,2]' : 0.0})
ebc_3 = EssentialBC(name='Inlet', region=region_2, dofs={'u.0' : 1.0, 'u.[1,2]' : 0.0})
ebc_4 = EssentialBC(name='Outlet', region=region_3, dofs={'p':0.0, 'u.[1,2]' : 0.0})
viscosity = Material(name='viscosity', value=1.25e-3)
variable_1 = FieldVariable('u', 'unknown', field_1)
variable_2 = FieldVariable(name='v', kind='test', field=field_1, primary_var_name='u')
variable_3 = FieldVariable(name='p', kind='unknown', field=field_2)
variable_4 = FieldVariable(name='q', kind='test', field=field_2, primary_var_name='p')
integral_1 = Integral('i1', order=2)
integral_2 = Integral('i2', order=3)
t1 = Term.new(name='dw_div_grad(viscosity.value, v, u)',
integral=integral_2, region=omega, viscosity=viscosity, v=variable_2, u=variable_1)
t2 = Term.new(name='dw_convect(v, u)',
integral=integral_2, region=omega, v=variable_2, u=variable_1)
t3 = Term.new(name='dw_stokes(v, p)',
integral=integral_1, region=omega, v=variable_2, p=variable_3)
t4 = Term.new(name='dw_stokes(u, q)',
integral=integral_1, region=omega, u=variable_1, q=variable_4)
eq1 = Equation('balance', t1+t2-t3)
eq2 = Equation('incompressibility', t4)
eqs = Equations([eq1,eq2])
ls = ScipyDirect({})
nls_status = IndexedStruct()
nls = Newton({'i_max' : 20, 'eps_a' : 1e-8, 'eps_r' : 1.0, 'macheps' : 1e-16, 'lin_red' : 1e-2, 'ls_red' : 0.1, 'ls_red_warp' : 0.001, 'ls_on' : 0.99999, 'ls_min' : 1e-5, 'check' : 0, 'delta' : 1e-6}, lin_solver=ls, status=nls_status)
pb = Problem('Navier-Stokes', equations=eqs)
pb.set_bcs(ebcs= | Conditions([ebc_1, ebc_2, ebc_3]) | sfepy.discrete.conditions.Conditions |
r"""
Piezo-elasticity problem - linear elastic material with piezoelectric
effects.
Find :math:`\ul{u}`, :math:`\phi` such that:
.. math::
- \omega^2 \int_{Y} \rho\ \ul{v} \cdot \ul{u}
+ \int_{Y} D_{ijkl}\ e_{ij}(\ul{v}) e_{kl}(\ul{u})
- \int_{Y_2} g_{kij}\ e_{ij}(\ul{v}) \nabla_k \phi
= 0
\;, \quad \forall \ul{v} \;,
\int_{Y_2} g_{kij}\ e_{ij}(\ul{u}) \nabla_k \psi
+ \int_{Y} K_{ij} \nabla_i \psi \nabla_j \phi
= 0
\;, \quad \forall \psi \;,
where
.. math::
D_{ijkl} = \mu (\delta_{ik} \delta_{jl}+\delta_{il} \delta_{jk}) +
\lambda \ \delta_{ij} \delta_{kl}
\;.
"""
import os
import numpy as nm
from sfepy import data_dir
from sfepy.discrete.fem import MeshIO
filename_mesh = data_dir + '/meshes/2d/special/circle_in_square.mesh'
## filename_mesh = data_dir + '/meshes/2d/special/circle_in_square_small.mesh'
## filename_mesh = data_dir + '/meshes/3d/special/cube_sphere.mesh'
## filename_mesh = data_dir + '/meshes/2d/special/cube_cylinder.mesh'
omega = 1
omega_squared = omega**2
conf_dir = os.path.dirname(__file__)
io = | MeshIO.any_from_filename(filename_mesh, prefix_dir=conf_dir) | sfepy.discrete.fem.MeshIO.any_from_filename |
#!/usr/bin/env python
"""
Convert a mesh file from one SfePy-supported format to another.
Examples::
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s2.5
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1 -c 0
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.mesh --remesh='q2/0 a1e-8 O9/7 V'
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new2.mesh --remesh='rq2/0 a1e-8 O9/7 V'
"""
from __future__ import absolute_import
import sys
import os.path as op
from six.moves import range
sys.path.append('.')
from argparse import ArgumentParser, RawDescriptionHelpFormatter
from sfepy.base.base import nm, output
from sfepy.base.ioutils import remove_files
from sfepy.discrete.fem import Mesh, FEDomain
from sfepy.discrete.fem.meshio import (output_mesh_formats, MeshIO,
supported_cell_types)
from sfepy.discrete.fem.mesh import fix_double_nodes
from sfepy.mesh.mesh_tools import elems_q2t
helps = {
'scale' : 'scale factor (float or comma-separated list for each axis)'
' [default: %(default)s]',
'center' : 'center of the output mesh (0 for origin or'
' comma-separated list for each axis) applied after scaling'
' [default: %(default)s]',
'refine' : 'uniform refinement level [default: %(default)s]',
'format' : 'output mesh format (overrides filename_out extension)',
'list' : 'list supported readable/writable output mesh formats',
'merge' : 'remove duplicate vertices',
'tri-tetra' : 'convert elements: quad->tri, hexa->tetra',
'2d' : 'force a 2D mesh by removing the z coordinates - assumes a 3D mesh'
' in the xy plane',
'save-per-mat': 'extract cells by material id and save them into'
' separate mesh files with a name based on filename_out and the id'
' numbers (preserves original mesh vertices)',
'remesh' : """when given, remesh the given mesh using tetgen.
The options can be the following, separated by spaces, in this order: 1.
"r" causes remeshing of the mesh volume - if not present the mesh surface
is extracted and used for the volume mesh generation. 2.
"q[<float>/<float>]" (required) - the two numbers after "q" are a maximum
radius-edge ratio bound and a minimum dihedral angle bound. 3. "a<float>"
(optional) - the number imposes a maximum volume constraint on all
tetrahedra. 4. O[<0-9>/<0-7>] - the two numbers correspond to a mesh
optimization level and a choice of optimizing operations. 5. "V"
(optional) - if present, mesh statistics are printed. Consult the tetgen
documentation for details.""",
}
def _parse_val_or_vec(option, name, parser):
if option is not None:
try:
try:
option = float(option)
except ValueError:
option = [float(ii) for ii in option.split(',')]
option = nm.array(option, dtype=nm.float64, ndmin=1)
except:
output('bad %s! (%s)' % (name, option))
parser.print_help()
sys.exit(1)
return option
def main():
parser = ArgumentParser(description=__doc__,
formatter_class=RawDescriptionHelpFormatter)
parser.add_argument('-s', '--scale', metavar='scale',
action='store', dest='scale',
default=None, help=helps['scale'])
parser.add_argument('-c', '--center', metavar='center',
action='store', dest='center',
default=None, help=helps['center'])
parser.add_argument('-r', '--refine', metavar='level',
action='store', type=int, dest='refine',
default=0, help=helps['refine'])
parser.add_argument('-f', '--format', metavar='format',
action='store', type=str, dest='format',
default=None, help=helps['format'])
parser.add_argument('-l', '--list', action='store_true',
dest='list', help=helps['list'])
parser.add_argument('-m', '--merge', action='store_true',
dest='merge', help=helps['merge'])
parser.add_argument('-t', '--tri-tetra', action='store_true',
dest='tri_tetra', help=helps['tri-tetra'])
parser.add_argument('-2', '--2d', action='store_true',
dest='force_2d', help=helps['2d'])
parser.add_argument('--save-per-mat', action='store_true',
dest='save_per_mat', help=helps['save-per-mat'])
parser.add_argument('--remesh', metavar='options',
action='store', dest='remesh',
default=None, help=helps['remesh'])
parser.add_argument('filename_in')
parser.add_argument('filename_out')
options = parser.parse_args()
if options.list:
output('Supported readable mesh formats:')
output('--------------------------------')
output_mesh_formats('r')
output('')
output('Supported writable mesh formats:')
output('--------------------------------')
output_mesh_formats('w')
sys.exit(0)
scale = _parse_val_or_vec(options.scale, 'scale', parser)
center = _parse_val_or_vec(options.center, 'center', parser)
filename_in = options.filename_in
filename_out = options.filename_out
if options.remesh:
import tempfile
import shlex
import subprocess
dirname = tempfile.mkdtemp()
is_surface = options.remesh.startswith('q')
if is_surface:
mesh = Mesh.from_file(filename_in)
domain = FEDomain(mesh.name, mesh)
region = domain.create_region('surf', 'vertices of surface',
'facet')
surf_mesh = Mesh.from_region(region, mesh,
localize=True, is_surface=True)
filename = op.join(dirname, 'surf.mesh')
surf_mesh.write(filename, io='auto')
else:
import shutil
shutil.copy(filename_in, dirname)
filename = op.join(dirname, op.basename(filename_in))
qopts = ''.join(options.remesh.split()) # Remove spaces.
command = 'tetgen -BFENkACp%s %s' % (qopts, filename)
args = shlex.split(command)
subprocess.call(args)
root, ext = op.splitext(filename)
mesh = Mesh.from_file(root + '.1.vtk')
remove_files(dirname)
else:
mesh = Mesh.from_file(filename_in)
if options.force_2d:
data = list(mesh._get_io_data())
data[0] = data[0][:, :2]
mesh = Mesh.from_data(mesh.name, *data)
if scale is not None:
if len(scale) == 1:
tr = nm.eye(mesh.dim, dtype=nm.float64) * scale
elif len(scale) == mesh.dim:
tr = nm.diag(scale)
else:
raise ValueError('bad scale! (%s)' % scale)
mesh.transform_coors(tr)
if center is not None:
cc = 0.5 * mesh.get_bounding_box().sum(0)
shift = center - cc
tr = nm.c_[nm.eye(mesh.dim, dtype=nm.float64), shift[:, None]]
mesh.transform_coors(tr)
if options.refine > 0:
domain = FEDomain(mesh.name, mesh)
output('initial mesh: %d nodes %d elements'
% (domain.shape.n_nod, domain.shape.n_el))
for ii in range(options.refine):
output('refine %d...' % ii)
domain = domain.refine()
output('... %d nodes %d elements'
% (domain.shape.n_nod, domain.shape.n_el))
mesh = domain.mesh
if options.tri_tetra > 0:
conns = None
for k, new_desc in [('3_8', '3_4'), ('2_4', '2_3')]:
if k in mesh.descs:
conns = mesh.get_conn(k)
break
if conns is not None:
nelo = conns.shape[0]
output('initial mesh: %d elements' % nelo)
new_conns = elems_q2t(conns)
nn = new_conns.shape[0] // nelo
new_cgroups = nm.repeat(mesh.cmesh.cell_groups, nn)
output('new mesh: %d elements' % new_conns.shape[0])
mesh = Mesh.from_data(mesh.name, mesh.coors,
mesh.cmesh.vertex_groups,
[new_conns], [new_cgroups], [new_desc])
if options.merge:
desc = mesh.descs[0]
coor, ngroups, conns = fix_double_nodes(mesh.coors,
mesh.cmesh.vertex_groups,
mesh.get_conn(desc), 1e-9)
mesh = Mesh.from_data(mesh.name + '_merged',
coor, ngroups,
[conns], [mesh.cmesh.cell_groups], [desc])
if options.save_per_mat:
desc = mesh.descs[0]
conns, cgroups = mesh.get_conn(desc), mesh.cmesh.cell_groups
coors, ngroups = mesh.coors, mesh.cmesh.vertex_groups
mat_ids = nm.unique(cgroups)
for mat_id in mat_ids:
idxs = nm.where(cgroups == mat_id)[0]
imesh = Mesh.from_data(mesh.name + '_matid_%d' % mat_id,
coors, ngroups,
[conns[idxs]], [cgroups[idxs]], [desc])
fbase, fext = op.splitext(filename_out)
ifilename_out = '%s_matid_%d%s' % (fbase, mat_id, fext)
io = MeshIO.for_format(ifilename_out, format=options.format,
writable=True)
output('writing %s...' % ifilename_out)
imesh.write(ifilename_out, io=io)
output('...done')
io = MeshIO.for_format(filename_out, format=options.format,
writable=True)
cell_types = ', '.join(supported_cell_types[io.format])
| output('writing [%s] %s...' % (cell_types, filename_out)) | sfepy.base.base.output |
#!/usr/bin/env python
"""
Convert a mesh file from one SfePy-supported format to another.
Examples::
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s2.5
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1 -c 0
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.mesh --remesh='q2/0 a1e-8 O9/7 V'
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new2.mesh --remesh='rq2/0 a1e-8 O9/7 V'
"""
from __future__ import absolute_import
import sys
import os.path as op
from six.moves import range
sys.path.append('.')
from argparse import ArgumentParser, RawDescriptionHelpFormatter
from sfepy.base.base import nm, output
from sfepy.base.ioutils import remove_files
from sfepy.discrete.fem import Mesh, FEDomain
from sfepy.discrete.fem.meshio import (output_mesh_formats, MeshIO,
supported_cell_types)
from sfepy.discrete.fem.mesh import fix_double_nodes
from sfepy.mesh.mesh_tools import elems_q2t
helps = {
'scale' : 'scale factor (float or comma-separated list for each axis)'
' [default: %(default)s]',
'center' : 'center of the output mesh (0 for origin or'
' comma-separated list for each axis) applied after scaling'
' [default: %(default)s]',
'refine' : 'uniform refinement level [default: %(default)s]',
'format' : 'output mesh format (overrides filename_out extension)',
'list' : 'list supported readable/writable output mesh formats',
'merge' : 'remove duplicate vertices',
'tri-tetra' : 'convert elements: quad->tri, hexa->tetra',
'2d' : 'force a 2D mesh by removing the z coordinates - assumes a 3D mesh'
' in the xy plane',
'save-per-mat': 'extract cells by material id and save them into'
' separate mesh files with a name based on filename_out and the id'
' numbers (preserves original mesh vertices)',
'remesh' : """when given, remesh the given mesh using tetgen.
The options can be the following, separated by spaces, in this order: 1.
"r" causes remeshing of the mesh volume - if not present the mesh surface
is extracted and used for the volume mesh generation. 2.
"q[<float>/<float>]" (required) - the two numbers after "q" are a maximum
radius-edge ratio bound and a minimum dihedral angle bound. 3. "a<float>"
(optional) - the number imposes a maximum volume constraint on all
tetrahedra. 4. O[<0-9>/<0-7>] - the two numbers correspond to a mesh
optimization level and a choice of optimizing operations. 5. "V"
(optional) - if present, mesh statistics are printed. Consult the tetgen
documentation for details.""",
}
def _parse_val_or_vec(option, name, parser):
if option is not None:
try:
try:
option = float(option)
except ValueError:
option = [float(ii) for ii in option.split(',')]
option = nm.array(option, dtype=nm.float64, ndmin=1)
except:
output('bad %s! (%s)' % (name, option))
parser.print_help()
sys.exit(1)
return option
def main():
parser = ArgumentParser(description=__doc__,
formatter_class=RawDescriptionHelpFormatter)
parser.add_argument('-s', '--scale', metavar='scale',
action='store', dest='scale',
default=None, help=helps['scale'])
parser.add_argument('-c', '--center', metavar='center',
action='store', dest='center',
default=None, help=helps['center'])
parser.add_argument('-r', '--refine', metavar='level',
action='store', type=int, dest='refine',
default=0, help=helps['refine'])
parser.add_argument('-f', '--format', metavar='format',
action='store', type=str, dest='format',
default=None, help=helps['format'])
parser.add_argument('-l', '--list', action='store_true',
dest='list', help=helps['list'])
parser.add_argument('-m', '--merge', action='store_true',
dest='merge', help=helps['merge'])
parser.add_argument('-t', '--tri-tetra', action='store_true',
dest='tri_tetra', help=helps['tri-tetra'])
parser.add_argument('-2', '--2d', action='store_true',
dest='force_2d', help=helps['2d'])
parser.add_argument('--save-per-mat', action='store_true',
dest='save_per_mat', help=helps['save-per-mat'])
parser.add_argument('--remesh', metavar='options',
action='store', dest='remesh',
default=None, help=helps['remesh'])
parser.add_argument('filename_in')
parser.add_argument('filename_out')
options = parser.parse_args()
if options.list:
output('Supported readable mesh formats:')
output('--------------------------------')
output_mesh_formats('r')
output('')
output('Supported writable mesh formats:')
output('--------------------------------')
output_mesh_formats('w')
sys.exit(0)
scale = _parse_val_or_vec(options.scale, 'scale', parser)
center = _parse_val_or_vec(options.center, 'center', parser)
filename_in = options.filename_in
filename_out = options.filename_out
if options.remesh:
import tempfile
import shlex
import subprocess
dirname = tempfile.mkdtemp()
is_surface = options.remesh.startswith('q')
if is_surface:
mesh = Mesh.from_file(filename_in)
domain = FEDomain(mesh.name, mesh)
region = domain.create_region('surf', 'vertices of surface',
'facet')
surf_mesh = Mesh.from_region(region, mesh,
localize=True, is_surface=True)
filename = op.join(dirname, 'surf.mesh')
surf_mesh.write(filename, io='auto')
else:
import shutil
shutil.copy(filename_in, dirname)
filename = op.join(dirname, op.basename(filename_in))
qopts = ''.join(options.remesh.split()) # Remove spaces.
command = 'tetgen -BFENkACp%s %s' % (qopts, filename)
args = shlex.split(command)
subprocess.call(args)
root, ext = op.splitext(filename)
mesh = Mesh.from_file(root + '.1.vtk')
remove_files(dirname)
else:
mesh = Mesh.from_file(filename_in)
if options.force_2d:
data = list(mesh._get_io_data())
data[0] = data[0][:, :2]
mesh = Mesh.from_data(mesh.name, *data)
if scale is not None:
if len(scale) == 1:
tr = nm.eye(mesh.dim, dtype=nm.float64) * scale
elif len(scale) == mesh.dim:
tr = nm.diag(scale)
else:
raise ValueError('bad scale! (%s)' % scale)
mesh.transform_coors(tr)
if center is not None:
cc = 0.5 * mesh.get_bounding_box().sum(0)
shift = center - cc
tr = nm.c_[nm.eye(mesh.dim, dtype=nm.float64), shift[:, None]]
mesh.transform_coors(tr)
if options.refine > 0:
domain = FEDomain(mesh.name, mesh)
output('initial mesh: %d nodes %d elements'
% (domain.shape.n_nod, domain.shape.n_el))
for ii in range(options.refine):
output('refine %d...' % ii)
domain = domain.refine()
output('... %d nodes %d elements'
% (domain.shape.n_nod, domain.shape.n_el))
mesh = domain.mesh
if options.tri_tetra > 0:
conns = None
for k, new_desc in [('3_8', '3_4'), ('2_4', '2_3')]:
if k in mesh.descs:
conns = mesh.get_conn(k)
break
if conns is not None:
nelo = conns.shape[0]
output('initial mesh: %d elements' % nelo)
new_conns = elems_q2t(conns)
nn = new_conns.shape[0] // nelo
new_cgroups = nm.repeat(mesh.cmesh.cell_groups, nn)
output('new mesh: %d elements' % new_conns.shape[0])
mesh = Mesh.from_data(mesh.name, mesh.coors,
mesh.cmesh.vertex_groups,
[new_conns], [new_cgroups], [new_desc])
if options.merge:
desc = mesh.descs[0]
coor, ngroups, conns = fix_double_nodes(mesh.coors,
mesh.cmesh.vertex_groups,
mesh.get_conn(desc), 1e-9)
mesh = Mesh.from_data(mesh.name + '_merged',
coor, ngroups,
[conns], [mesh.cmesh.cell_groups], [desc])
if options.save_per_mat:
desc = mesh.descs[0]
conns, cgroups = mesh.get_conn(desc), mesh.cmesh.cell_groups
coors, ngroups = mesh.coors, mesh.cmesh.vertex_groups
mat_ids = nm.unique(cgroups)
for mat_id in mat_ids:
idxs = nm.where(cgroups == mat_id)[0]
imesh = Mesh.from_data(mesh.name + '_matid_%d' % mat_id,
coors, ngroups,
[conns[idxs]], [cgroups[idxs]], [desc])
fbase, fext = op.splitext(filename_out)
ifilename_out = '%s_matid_%d%s' % (fbase, mat_id, fext)
io = MeshIO.for_format(ifilename_out, format=options.format,
writable=True)
output('writing %s...' % ifilename_out)
imesh.write(ifilename_out, io=io)
output('...done')
io = MeshIO.for_format(filename_out, format=options.format,
writable=True)
cell_types = ', '.join(supported_cell_types[io.format])
output('writing [%s] %s...' % (cell_types, filename_out))
mesh.write(filename_out, io=io)
| output('...done') | sfepy.base.base.output |
#!/usr/bin/env python
"""
Convert a mesh file from one SfePy-supported format to another.
Examples::
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s2.5
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1 -c 0
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.mesh --remesh='q2/0 a1e-8 O9/7 V'
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new2.mesh --remesh='rq2/0 a1e-8 O9/7 V'
"""
from __future__ import absolute_import
import sys
import os.path as op
from six.moves import range
sys.path.append('.')
from argparse import ArgumentParser, RawDescriptionHelpFormatter
from sfepy.base.base import nm, output
from sfepy.base.ioutils import remove_files
from sfepy.discrete.fem import Mesh, FEDomain
from sfepy.discrete.fem.meshio import (output_mesh_formats, MeshIO,
supported_cell_types)
from sfepy.discrete.fem.mesh import fix_double_nodes
from sfepy.mesh.mesh_tools import elems_q2t
helps = {
'scale' : 'scale factor (float or comma-separated list for each axis)'
' [default: %(default)s]',
'center' : 'center of the output mesh (0 for origin or'
' comma-separated list for each axis) applied after scaling'
' [default: %(default)s]',
'refine' : 'uniform refinement level [default: %(default)s]',
'format' : 'output mesh format (overrides filename_out extension)',
'list' : 'list supported readable/writable output mesh formats',
'merge' : 'remove duplicate vertices',
'tri-tetra' : 'convert elements: quad->tri, hexa->tetra',
'2d' : 'force a 2D mesh by removing the z coordinates - assumes a 3D mesh'
' in the xy plane',
'save-per-mat': 'extract cells by material id and save them into'
' separate mesh files with a name based on filename_out and the id'
' numbers (preserves original mesh vertices)',
'remesh' : """when given, remesh the given mesh using tetgen.
The options can be the following, separated by spaces, in this order: 1.
"r" causes remeshing of the mesh volume - if not present the mesh surface
is extracted and used for the volume mesh generation. 2.
"q[<float>/<float>]" (required) - the two numbers after "q" are a maximum
radius-edge ratio bound and a minimum dihedral angle bound. 3. "a<float>"
(optional) - the number imposes a maximum volume constraint on all
tetrahedra. 4. O[<0-9>/<0-7>] - the two numbers correspond to a mesh
optimization level and a choice of optimizing operations. 5. "V"
(optional) - if present, mesh statistics are printed. Consult the tetgen
documentation for details.""",
}
def _parse_val_or_vec(option, name, parser):
if option is not None:
try:
try:
option = float(option)
except ValueError:
option = [float(ii) for ii in option.split(',')]
option = nm.array(option, dtype=nm.float64, ndmin=1)
except:
output('bad %s! (%s)' % (name, option))
parser.print_help()
sys.exit(1)
return option
def main():
parser = ArgumentParser(description=__doc__,
formatter_class=RawDescriptionHelpFormatter)
parser.add_argument('-s', '--scale', metavar='scale',
action='store', dest='scale',
default=None, help=helps['scale'])
parser.add_argument('-c', '--center', metavar='center',
action='store', dest='center',
default=None, help=helps['center'])
parser.add_argument('-r', '--refine', metavar='level',
action='store', type=int, dest='refine',
default=0, help=helps['refine'])
parser.add_argument('-f', '--format', metavar='format',
action='store', type=str, dest='format',
default=None, help=helps['format'])
parser.add_argument('-l', '--list', action='store_true',
dest='list', help=helps['list'])
parser.add_argument('-m', '--merge', action='store_true',
dest='merge', help=helps['merge'])
parser.add_argument('-t', '--tri-tetra', action='store_true',
dest='tri_tetra', help=helps['tri-tetra'])
parser.add_argument('-2', '--2d', action='store_true',
dest='force_2d', help=helps['2d'])
parser.add_argument('--save-per-mat', action='store_true',
dest='save_per_mat', help=helps['save-per-mat'])
parser.add_argument('--remesh', metavar='options',
action='store', dest='remesh',
default=None, help=helps['remesh'])
parser.add_argument('filename_in')
parser.add_argument('filename_out')
options = parser.parse_args()
if options.list:
| output('Supported readable mesh formats:') | sfepy.base.base.output |
#!/usr/bin/env python
"""
Convert a mesh file from one SfePy-supported format to another.
Examples::
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s2.5
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1 -c 0
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.mesh --remesh='q2/0 a1e-8 O9/7 V'
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new2.mesh --remesh='rq2/0 a1e-8 O9/7 V'
"""
from __future__ import absolute_import
import sys
import os.path as op
from six.moves import range
sys.path.append('.')
from argparse import ArgumentParser, RawDescriptionHelpFormatter
from sfepy.base.base import nm, output
from sfepy.base.ioutils import remove_files
from sfepy.discrete.fem import Mesh, FEDomain
from sfepy.discrete.fem.meshio import (output_mesh_formats, MeshIO,
supported_cell_types)
from sfepy.discrete.fem.mesh import fix_double_nodes
from sfepy.mesh.mesh_tools import elems_q2t
helps = {
'scale' : 'scale factor (float or comma-separated list for each axis)'
' [default: %(default)s]',
'center' : 'center of the output mesh (0 for origin or'
' comma-separated list for each axis) applied after scaling'
' [default: %(default)s]',
'refine' : 'uniform refinement level [default: %(default)s]',
'format' : 'output mesh format (overrides filename_out extension)',
'list' : 'list supported readable/writable output mesh formats',
'merge' : 'remove duplicate vertices',
'tri-tetra' : 'convert elements: quad->tri, hexa->tetra',
'2d' : 'force a 2D mesh by removing the z coordinates - assumes a 3D mesh'
' in the xy plane',
'save-per-mat': 'extract cells by material id and save them into'
' separate mesh files with a name based on filename_out and the id'
' numbers (preserves original mesh vertices)',
'remesh' : """when given, remesh the given mesh using tetgen.
The options can be the following, separated by spaces, in this order: 1.
"r" causes remeshing of the mesh volume - if not present the mesh surface
is extracted and used for the volume mesh generation. 2.
"q[<float>/<float>]" (required) - the two numbers after "q" are a maximum
radius-edge ratio bound and a minimum dihedral angle bound. 3. "a<float>"
(optional) - the number imposes a maximum volume constraint on all
tetrahedra. 4. O[<0-9>/<0-7>] - the two numbers correspond to a mesh
optimization level and a choice of optimizing operations. 5. "V"
(optional) - if present, mesh statistics are printed. Consult the tetgen
documentation for details.""",
}
def _parse_val_or_vec(option, name, parser):
if option is not None:
try:
try:
option = float(option)
except ValueError:
option = [float(ii) for ii in option.split(',')]
option = nm.array(option, dtype=nm.float64, ndmin=1)
except:
output('bad %s! (%s)' % (name, option))
parser.print_help()
sys.exit(1)
return option
def main():
parser = ArgumentParser(description=__doc__,
formatter_class=RawDescriptionHelpFormatter)
parser.add_argument('-s', '--scale', metavar='scale',
action='store', dest='scale',
default=None, help=helps['scale'])
parser.add_argument('-c', '--center', metavar='center',
action='store', dest='center',
default=None, help=helps['center'])
parser.add_argument('-r', '--refine', metavar='level',
action='store', type=int, dest='refine',
default=0, help=helps['refine'])
parser.add_argument('-f', '--format', metavar='format',
action='store', type=str, dest='format',
default=None, help=helps['format'])
parser.add_argument('-l', '--list', action='store_true',
dest='list', help=helps['list'])
parser.add_argument('-m', '--merge', action='store_true',
dest='merge', help=helps['merge'])
parser.add_argument('-t', '--tri-tetra', action='store_true',
dest='tri_tetra', help=helps['tri-tetra'])
parser.add_argument('-2', '--2d', action='store_true',
dest='force_2d', help=helps['2d'])
parser.add_argument('--save-per-mat', action='store_true',
dest='save_per_mat', help=helps['save-per-mat'])
parser.add_argument('--remesh', metavar='options',
action='store', dest='remesh',
default=None, help=helps['remesh'])
parser.add_argument('filename_in')
parser.add_argument('filename_out')
options = parser.parse_args()
if options.list:
output('Supported readable mesh formats:')
| output('--------------------------------') | sfepy.base.base.output |
#!/usr/bin/env python
"""
Convert a mesh file from one SfePy-supported format to another.
Examples::
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s2.5
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1 -c 0
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.mesh --remesh='q2/0 a1e-8 O9/7 V'
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new2.mesh --remesh='rq2/0 a1e-8 O9/7 V'
"""
from __future__ import absolute_import
import sys
import os.path as op
from six.moves import range
sys.path.append('.')
from argparse import ArgumentParser, RawDescriptionHelpFormatter
from sfepy.base.base import nm, output
from sfepy.base.ioutils import remove_files
from sfepy.discrete.fem import Mesh, FEDomain
from sfepy.discrete.fem.meshio import (output_mesh_formats, MeshIO,
supported_cell_types)
from sfepy.discrete.fem.mesh import fix_double_nodes
from sfepy.mesh.mesh_tools import elems_q2t
helps = {
'scale' : 'scale factor (float or comma-separated list for each axis)'
' [default: %(default)s]',
'center' : 'center of the output mesh (0 for origin or'
' comma-separated list for each axis) applied after scaling'
' [default: %(default)s]',
'refine' : 'uniform refinement level [default: %(default)s]',
'format' : 'output mesh format (overrides filename_out extension)',
'list' : 'list supported readable/writable output mesh formats',
'merge' : 'remove duplicate vertices',
'tri-tetra' : 'convert elements: quad->tri, hexa->tetra',
'2d' : 'force a 2D mesh by removing the z coordinates - assumes a 3D mesh'
' in the xy plane',
'save-per-mat': 'extract cells by material id and save them into'
' separate mesh files with a name based on filename_out and the id'
' numbers (preserves original mesh vertices)',
'remesh' : """when given, remesh the given mesh using tetgen.
The options can be the following, separated by spaces, in this order: 1.
"r" causes remeshing of the mesh volume - if not present the mesh surface
is extracted and used for the volume mesh generation. 2.
"q[<float>/<float>]" (required) - the two numbers after "q" are a maximum
radius-edge ratio bound and a minimum dihedral angle bound. 3. "a<float>"
(optional) - the number imposes a maximum volume constraint on all
tetrahedra. 4. O[<0-9>/<0-7>] - the two numbers correspond to a mesh
optimization level and a choice of optimizing operations. 5. "V"
(optional) - if present, mesh statistics are printed. Consult the tetgen
documentation for details.""",
}
def _parse_val_or_vec(option, name, parser):
if option is not None:
try:
try:
option = float(option)
except ValueError:
option = [float(ii) for ii in option.split(',')]
option = nm.array(option, dtype=nm.float64, ndmin=1)
except:
output('bad %s! (%s)' % (name, option))
parser.print_help()
sys.exit(1)
return option
def main():
parser = ArgumentParser(description=__doc__,
formatter_class=RawDescriptionHelpFormatter)
parser.add_argument('-s', '--scale', metavar='scale',
action='store', dest='scale',
default=None, help=helps['scale'])
parser.add_argument('-c', '--center', metavar='center',
action='store', dest='center',
default=None, help=helps['center'])
parser.add_argument('-r', '--refine', metavar='level',
action='store', type=int, dest='refine',
default=0, help=helps['refine'])
parser.add_argument('-f', '--format', metavar='format',
action='store', type=str, dest='format',
default=None, help=helps['format'])
parser.add_argument('-l', '--list', action='store_true',
dest='list', help=helps['list'])
parser.add_argument('-m', '--merge', action='store_true',
dest='merge', help=helps['merge'])
parser.add_argument('-t', '--tri-tetra', action='store_true',
dest='tri_tetra', help=helps['tri-tetra'])
parser.add_argument('-2', '--2d', action='store_true',
dest='force_2d', help=helps['2d'])
parser.add_argument('--save-per-mat', action='store_true',
dest='save_per_mat', help=helps['save-per-mat'])
parser.add_argument('--remesh', metavar='options',
action='store', dest='remesh',
default=None, help=helps['remesh'])
parser.add_argument('filename_in')
parser.add_argument('filename_out')
options = parser.parse_args()
if options.list:
output('Supported readable mesh formats:')
output('--------------------------------')
| output_mesh_formats('r') | sfepy.discrete.fem.meshio.output_mesh_formats |
#!/usr/bin/env python
"""
Convert a mesh file from one SfePy-supported format to another.
Examples::
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s2.5
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1 -c 0
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.mesh --remesh='q2/0 a1e-8 O9/7 V'
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new2.mesh --remesh='rq2/0 a1e-8 O9/7 V'
"""
from __future__ import absolute_import
import sys
import os.path as op
from six.moves import range
sys.path.append('.')
from argparse import ArgumentParser, RawDescriptionHelpFormatter
from sfepy.base.base import nm, output
from sfepy.base.ioutils import remove_files
from sfepy.discrete.fem import Mesh, FEDomain
from sfepy.discrete.fem.meshio import (output_mesh_formats, MeshIO,
supported_cell_types)
from sfepy.discrete.fem.mesh import fix_double_nodes
from sfepy.mesh.mesh_tools import elems_q2t
helps = {
'scale' : 'scale factor (float or comma-separated list for each axis)'
' [default: %(default)s]',
'center' : 'center of the output mesh (0 for origin or'
' comma-separated list for each axis) applied after scaling'
' [default: %(default)s]',
'refine' : 'uniform refinement level [default: %(default)s]',
'format' : 'output mesh format (overrides filename_out extension)',
'list' : 'list supported readable/writable output mesh formats',
'merge' : 'remove duplicate vertices',
'tri-tetra' : 'convert elements: quad->tri, hexa->tetra',
'2d' : 'force a 2D mesh by removing the z coordinates - assumes a 3D mesh'
' in the xy plane',
'save-per-mat': 'extract cells by material id and save them into'
' separate mesh files with a name based on filename_out and the id'
' numbers (preserves original mesh vertices)',
'remesh' : """when given, remesh the given mesh using tetgen.
The options can be the following, separated by spaces, in this order: 1.
"r" causes remeshing of the mesh volume - if not present the mesh surface
is extracted and used for the volume mesh generation. 2.
"q[<float>/<float>]" (required) - the two numbers after "q" are a maximum
radius-edge ratio bound and a minimum dihedral angle bound. 3. "a<float>"
(optional) - the number imposes a maximum volume constraint on all
tetrahedra. 4. O[<0-9>/<0-7>] - the two numbers correspond to a mesh
optimization level and a choice of optimizing operations. 5. "V"
(optional) - if present, mesh statistics are printed. Consult the tetgen
documentation for details.""",
}
def _parse_val_or_vec(option, name, parser):
if option is not None:
try:
try:
option = float(option)
except ValueError:
option = [float(ii) for ii in option.split(',')]
option = nm.array(option, dtype=nm.float64, ndmin=1)
except:
output('bad %s! (%s)' % (name, option))
parser.print_help()
sys.exit(1)
return option
def main():
parser = ArgumentParser(description=__doc__,
formatter_class=RawDescriptionHelpFormatter)
parser.add_argument('-s', '--scale', metavar='scale',
action='store', dest='scale',
default=None, help=helps['scale'])
parser.add_argument('-c', '--center', metavar='center',
action='store', dest='center',
default=None, help=helps['center'])
parser.add_argument('-r', '--refine', metavar='level',
action='store', type=int, dest='refine',
default=0, help=helps['refine'])
parser.add_argument('-f', '--format', metavar='format',
action='store', type=str, dest='format',
default=None, help=helps['format'])
parser.add_argument('-l', '--list', action='store_true',
dest='list', help=helps['list'])
parser.add_argument('-m', '--merge', action='store_true',
dest='merge', help=helps['merge'])
parser.add_argument('-t', '--tri-tetra', action='store_true',
dest='tri_tetra', help=helps['tri-tetra'])
parser.add_argument('-2', '--2d', action='store_true',
dest='force_2d', help=helps['2d'])
parser.add_argument('--save-per-mat', action='store_true',
dest='save_per_mat', help=helps['save-per-mat'])
parser.add_argument('--remesh', metavar='options',
action='store', dest='remesh',
default=None, help=helps['remesh'])
parser.add_argument('filename_in')
parser.add_argument('filename_out')
options = parser.parse_args()
if options.list:
output('Supported readable mesh formats:')
output('--------------------------------')
output_mesh_formats('r')
| output('') | sfepy.base.base.output |
#!/usr/bin/env python
"""
Convert a mesh file from one SfePy-supported format to another.
Examples::
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s2.5
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1 -c 0
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.mesh --remesh='q2/0 a1e-8 O9/7 V'
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new2.mesh --remesh='rq2/0 a1e-8 O9/7 V'
"""
from __future__ import absolute_import
import sys
import os.path as op
from six.moves import range
sys.path.append('.')
from argparse import ArgumentParser, RawDescriptionHelpFormatter
from sfepy.base.base import nm, output
from sfepy.base.ioutils import remove_files
from sfepy.discrete.fem import Mesh, FEDomain
from sfepy.discrete.fem.meshio import (output_mesh_formats, MeshIO,
supported_cell_types)
from sfepy.discrete.fem.mesh import fix_double_nodes
from sfepy.mesh.mesh_tools import elems_q2t
helps = {
'scale' : 'scale factor (float or comma-separated list for each axis)'
' [default: %(default)s]',
'center' : 'center of the output mesh (0 for origin or'
' comma-separated list for each axis) applied after scaling'
' [default: %(default)s]',
'refine' : 'uniform refinement level [default: %(default)s]',
'format' : 'output mesh format (overrides filename_out extension)',
'list' : 'list supported readable/writable output mesh formats',
'merge' : 'remove duplicate vertices',
'tri-tetra' : 'convert elements: quad->tri, hexa->tetra',
'2d' : 'force a 2D mesh by removing the z coordinates - assumes a 3D mesh'
' in the xy plane',
'save-per-mat': 'extract cells by material id and save them into'
' separate mesh files with a name based on filename_out and the id'
' numbers (preserves original mesh vertices)',
'remesh' : """when given, remesh the given mesh using tetgen.
The options can be the following, separated by spaces, in this order: 1.
"r" causes remeshing of the mesh volume - if not present the mesh surface
is extracted and used for the volume mesh generation. 2.
"q[<float>/<float>]" (required) - the two numbers after "q" are a maximum
radius-edge ratio bound and a minimum dihedral angle bound. 3. "a<float>"
(optional) - the number imposes a maximum volume constraint on all
tetrahedra. 4. O[<0-9>/<0-7>] - the two numbers correspond to a mesh
optimization level and a choice of optimizing operations. 5. "V"
(optional) - if present, mesh statistics are printed. Consult the tetgen
documentation for details.""",
}
def _parse_val_or_vec(option, name, parser):
if option is not None:
try:
try:
option = float(option)
except ValueError:
option = [float(ii) for ii in option.split(',')]
option = nm.array(option, dtype=nm.float64, ndmin=1)
except:
output('bad %s! (%s)' % (name, option))
parser.print_help()
sys.exit(1)
return option
def main():
parser = ArgumentParser(description=__doc__,
formatter_class=RawDescriptionHelpFormatter)
parser.add_argument('-s', '--scale', metavar='scale',
action='store', dest='scale',
default=None, help=helps['scale'])
parser.add_argument('-c', '--center', metavar='center',
action='store', dest='center',
default=None, help=helps['center'])
parser.add_argument('-r', '--refine', metavar='level',
action='store', type=int, dest='refine',
default=0, help=helps['refine'])
parser.add_argument('-f', '--format', metavar='format',
action='store', type=str, dest='format',
default=None, help=helps['format'])
parser.add_argument('-l', '--list', action='store_true',
dest='list', help=helps['list'])
parser.add_argument('-m', '--merge', action='store_true',
dest='merge', help=helps['merge'])
parser.add_argument('-t', '--tri-tetra', action='store_true',
dest='tri_tetra', help=helps['tri-tetra'])
parser.add_argument('-2', '--2d', action='store_true',
dest='force_2d', help=helps['2d'])
parser.add_argument('--save-per-mat', action='store_true',
dest='save_per_mat', help=helps['save-per-mat'])
parser.add_argument('--remesh', metavar='options',
action='store', dest='remesh',
default=None, help=helps['remesh'])
parser.add_argument('filename_in')
parser.add_argument('filename_out')
options = parser.parse_args()
if options.list:
output('Supported readable mesh formats:')
output('--------------------------------')
output_mesh_formats('r')
output('')
| output('Supported writable mesh formats:') | sfepy.base.base.output |
#!/usr/bin/env python
"""
Convert a mesh file from one SfePy-supported format to another.
Examples::
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s2.5
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1 -c 0
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.mesh --remesh='q2/0 a1e-8 O9/7 V'
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new2.mesh --remesh='rq2/0 a1e-8 O9/7 V'
"""
from __future__ import absolute_import
import sys
import os.path as op
from six.moves import range
sys.path.append('.')
from argparse import ArgumentParser, RawDescriptionHelpFormatter
from sfepy.base.base import nm, output
from sfepy.base.ioutils import remove_files
from sfepy.discrete.fem import Mesh, FEDomain
from sfepy.discrete.fem.meshio import (output_mesh_formats, MeshIO,
supported_cell_types)
from sfepy.discrete.fem.mesh import fix_double_nodes
from sfepy.mesh.mesh_tools import elems_q2t
helps = {
'scale' : 'scale factor (float or comma-separated list for each axis)'
' [default: %(default)s]',
'center' : 'center of the output mesh (0 for origin or'
' comma-separated list for each axis) applied after scaling'
' [default: %(default)s]',
'refine' : 'uniform refinement level [default: %(default)s]',
'format' : 'output mesh format (overrides filename_out extension)',
'list' : 'list supported readable/writable output mesh formats',
'merge' : 'remove duplicate vertices',
'tri-tetra' : 'convert elements: quad->tri, hexa->tetra',
'2d' : 'force a 2D mesh by removing the z coordinates - assumes a 3D mesh'
' in the xy plane',
'save-per-mat': 'extract cells by material id and save them into'
' separate mesh files with a name based on filename_out and the id'
' numbers (preserves original mesh vertices)',
'remesh' : """when given, remesh the given mesh using tetgen.
The options can be the following, separated by spaces, in this order: 1.
"r" causes remeshing of the mesh volume - if not present the mesh surface
is extracted and used for the volume mesh generation. 2.
"q[<float>/<float>]" (required) - the two numbers after "q" are a maximum
radius-edge ratio bound and a minimum dihedral angle bound. 3. "a<float>"
(optional) - the number imposes a maximum volume constraint on all
tetrahedra. 4. O[<0-9>/<0-7>] - the two numbers correspond to a mesh
optimization level and a choice of optimizing operations. 5. "V"
(optional) - if present, mesh statistics are printed. Consult the tetgen
documentation for details.""",
}
def _parse_val_or_vec(option, name, parser):
if option is not None:
try:
try:
option = float(option)
except ValueError:
option = [float(ii) for ii in option.split(',')]
option = nm.array(option, dtype=nm.float64, ndmin=1)
except:
output('bad %s! (%s)' % (name, option))
parser.print_help()
sys.exit(1)
return option
def main():
parser = ArgumentParser(description=__doc__,
formatter_class=RawDescriptionHelpFormatter)
parser.add_argument('-s', '--scale', metavar='scale',
action='store', dest='scale',
default=None, help=helps['scale'])
parser.add_argument('-c', '--center', metavar='center',
action='store', dest='center',
default=None, help=helps['center'])
parser.add_argument('-r', '--refine', metavar='level',
action='store', type=int, dest='refine',
default=0, help=helps['refine'])
parser.add_argument('-f', '--format', metavar='format',
action='store', type=str, dest='format',
default=None, help=helps['format'])
parser.add_argument('-l', '--list', action='store_true',
dest='list', help=helps['list'])
parser.add_argument('-m', '--merge', action='store_true',
dest='merge', help=helps['merge'])
parser.add_argument('-t', '--tri-tetra', action='store_true',
dest='tri_tetra', help=helps['tri-tetra'])
parser.add_argument('-2', '--2d', action='store_true',
dest='force_2d', help=helps['2d'])
parser.add_argument('--save-per-mat', action='store_true',
dest='save_per_mat', help=helps['save-per-mat'])
parser.add_argument('--remesh', metavar='options',
action='store', dest='remesh',
default=None, help=helps['remesh'])
parser.add_argument('filename_in')
parser.add_argument('filename_out')
options = parser.parse_args()
if options.list:
output('Supported readable mesh formats:')
output('--------------------------------')
output_mesh_formats('r')
output('')
output('Supported writable mesh formats:')
| output('--------------------------------') | sfepy.base.base.output |
#!/usr/bin/env python
"""
Convert a mesh file from one SfePy-supported format to another.
Examples::
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s2.5
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1 -c 0
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.mesh --remesh='q2/0 a1e-8 O9/7 V'
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new2.mesh --remesh='rq2/0 a1e-8 O9/7 V'
"""
from __future__ import absolute_import
import sys
import os.path as op
from six.moves import range
sys.path.append('.')
from argparse import ArgumentParser, RawDescriptionHelpFormatter
from sfepy.base.base import nm, output
from sfepy.base.ioutils import remove_files
from sfepy.discrete.fem import Mesh, FEDomain
from sfepy.discrete.fem.meshio import (output_mesh_formats, MeshIO,
supported_cell_types)
from sfepy.discrete.fem.mesh import fix_double_nodes
from sfepy.mesh.mesh_tools import elems_q2t
helps = {
'scale' : 'scale factor (float or comma-separated list for each axis)'
' [default: %(default)s]',
'center' : 'center of the output mesh (0 for origin or'
' comma-separated list for each axis) applied after scaling'
' [default: %(default)s]',
'refine' : 'uniform refinement level [default: %(default)s]',
'format' : 'output mesh format (overrides filename_out extension)',
'list' : 'list supported readable/writable output mesh formats',
'merge' : 'remove duplicate vertices',
'tri-tetra' : 'convert elements: quad->tri, hexa->tetra',
'2d' : 'force a 2D mesh by removing the z coordinates - assumes a 3D mesh'
' in the xy plane',
'save-per-mat': 'extract cells by material id and save them into'
' separate mesh files with a name based on filename_out and the id'
' numbers (preserves original mesh vertices)',
'remesh' : """when given, remesh the given mesh using tetgen.
The options can be the following, separated by spaces, in this order: 1.
"r" causes remeshing of the mesh volume - if not present the mesh surface
is extracted and used for the volume mesh generation. 2.
"q[<float>/<float>]" (required) - the two numbers after "q" are a maximum
radius-edge ratio bound and a minimum dihedral angle bound. 3. "a<float>"
(optional) - the number imposes a maximum volume constraint on all
tetrahedra. 4. O[<0-9>/<0-7>] - the two numbers correspond to a mesh
optimization level and a choice of optimizing operations. 5. "V"
(optional) - if present, mesh statistics are printed. Consult the tetgen
documentation for details.""",
}
def _parse_val_or_vec(option, name, parser):
if option is not None:
try:
try:
option = float(option)
except ValueError:
option = [float(ii) for ii in option.split(',')]
option = nm.array(option, dtype=nm.float64, ndmin=1)
except:
output('bad %s! (%s)' % (name, option))
parser.print_help()
sys.exit(1)
return option
def main():
parser = ArgumentParser(description=__doc__,
formatter_class=RawDescriptionHelpFormatter)
parser.add_argument('-s', '--scale', metavar='scale',
action='store', dest='scale',
default=None, help=helps['scale'])
parser.add_argument('-c', '--center', metavar='center',
action='store', dest='center',
default=None, help=helps['center'])
parser.add_argument('-r', '--refine', metavar='level',
action='store', type=int, dest='refine',
default=0, help=helps['refine'])
parser.add_argument('-f', '--format', metavar='format',
action='store', type=str, dest='format',
default=None, help=helps['format'])
parser.add_argument('-l', '--list', action='store_true',
dest='list', help=helps['list'])
parser.add_argument('-m', '--merge', action='store_true',
dest='merge', help=helps['merge'])
parser.add_argument('-t', '--tri-tetra', action='store_true',
dest='tri_tetra', help=helps['tri-tetra'])
parser.add_argument('-2', '--2d', action='store_true',
dest='force_2d', help=helps['2d'])
parser.add_argument('--save-per-mat', action='store_true',
dest='save_per_mat', help=helps['save-per-mat'])
parser.add_argument('--remesh', metavar='options',
action='store', dest='remesh',
default=None, help=helps['remesh'])
parser.add_argument('filename_in')
parser.add_argument('filename_out')
options = parser.parse_args()
if options.list:
output('Supported readable mesh formats:')
output('--------------------------------')
output_mesh_formats('r')
output('')
output('Supported writable mesh formats:')
output('--------------------------------')
| output_mesh_formats('w') | sfepy.discrete.fem.meshio.output_mesh_formats |
#!/usr/bin/env python
"""
Convert a mesh file from one SfePy-supported format to another.
Examples::
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s2.5
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1 -c 0
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.mesh --remesh='q2/0 a1e-8 O9/7 V'
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new2.mesh --remesh='rq2/0 a1e-8 O9/7 V'
"""
from __future__ import absolute_import
import sys
import os.path as op
from six.moves import range
sys.path.append('.')
from argparse import ArgumentParser, RawDescriptionHelpFormatter
from sfepy.base.base import nm, output
from sfepy.base.ioutils import remove_files
from sfepy.discrete.fem import Mesh, FEDomain
from sfepy.discrete.fem.meshio import (output_mesh_formats, MeshIO,
supported_cell_types)
from sfepy.discrete.fem.mesh import fix_double_nodes
from sfepy.mesh.mesh_tools import elems_q2t
helps = {
'scale' : 'scale factor (float or comma-separated list for each axis)'
' [default: %(default)s]',
'center' : 'center of the output mesh (0 for origin or'
' comma-separated list for each axis) applied after scaling'
' [default: %(default)s]',
'refine' : 'uniform refinement level [default: %(default)s]',
'format' : 'output mesh format (overrides filename_out extension)',
'list' : 'list supported readable/writable output mesh formats',
'merge' : 'remove duplicate vertices',
'tri-tetra' : 'convert elements: quad->tri, hexa->tetra',
'2d' : 'force a 2D mesh by removing the z coordinates - assumes a 3D mesh'
' in the xy plane',
'save-per-mat': 'extract cells by material id and save them into'
' separate mesh files with a name based on filename_out and the id'
' numbers (preserves original mesh vertices)',
'remesh' : """when given, remesh the given mesh using tetgen.
The options can be the following, separated by spaces, in this order: 1.
"r" causes remeshing of the mesh volume - if not present the mesh surface
is extracted and used for the volume mesh generation. 2.
"q[<float>/<float>]" (required) - the two numbers after "q" are a maximum
radius-edge ratio bound and a minimum dihedral angle bound. 3. "a<float>"
(optional) - the number imposes a maximum volume constraint on all
tetrahedra. 4. O[<0-9>/<0-7>] - the two numbers correspond to a mesh
optimization level and a choice of optimizing operations. 5. "V"
(optional) - if present, mesh statistics are printed. Consult the tetgen
documentation for details.""",
}
def _parse_val_or_vec(option, name, parser):
if option is not None:
try:
try:
option = float(option)
except ValueError:
option = [float(ii) for ii in option.split(',')]
option = nm.array(option, dtype=nm.float64, ndmin=1)
except:
output('bad %s! (%s)' % (name, option))
parser.print_help()
sys.exit(1)
return option
def main():
parser = ArgumentParser(description=__doc__,
formatter_class=RawDescriptionHelpFormatter)
parser.add_argument('-s', '--scale', metavar='scale',
action='store', dest='scale',
default=None, help=helps['scale'])
parser.add_argument('-c', '--center', metavar='center',
action='store', dest='center',
default=None, help=helps['center'])
parser.add_argument('-r', '--refine', metavar='level',
action='store', type=int, dest='refine',
default=0, help=helps['refine'])
parser.add_argument('-f', '--format', metavar='format',
action='store', type=str, dest='format',
default=None, help=helps['format'])
parser.add_argument('-l', '--list', action='store_true',
dest='list', help=helps['list'])
parser.add_argument('-m', '--merge', action='store_true',
dest='merge', help=helps['merge'])
parser.add_argument('-t', '--tri-tetra', action='store_true',
dest='tri_tetra', help=helps['tri-tetra'])
parser.add_argument('-2', '--2d', action='store_true',
dest='force_2d', help=helps['2d'])
parser.add_argument('--save-per-mat', action='store_true',
dest='save_per_mat', help=helps['save-per-mat'])
parser.add_argument('--remesh', metavar='options',
action='store', dest='remesh',
default=None, help=helps['remesh'])
parser.add_argument('filename_in')
parser.add_argument('filename_out')
options = parser.parse_args()
if options.list:
output('Supported readable mesh formats:')
output('--------------------------------')
output_mesh_formats('r')
output('')
output('Supported writable mesh formats:')
output('--------------------------------')
output_mesh_formats('w')
sys.exit(0)
scale = _parse_val_or_vec(options.scale, 'scale', parser)
center = _parse_val_or_vec(options.center, 'center', parser)
filename_in = options.filename_in
filename_out = options.filename_out
if options.remesh:
import tempfile
import shlex
import subprocess
dirname = tempfile.mkdtemp()
is_surface = options.remesh.startswith('q')
if is_surface:
mesh = Mesh.from_file(filename_in)
domain = FEDomain(mesh.name, mesh)
region = domain.create_region('surf', 'vertices of surface',
'facet')
surf_mesh = Mesh.from_region(region, mesh,
localize=True, is_surface=True)
filename = op.join(dirname, 'surf.mesh')
surf_mesh.write(filename, io='auto')
else:
import shutil
shutil.copy(filename_in, dirname)
filename = op.join(dirname, op.basename(filename_in))
qopts = ''.join(options.remesh.split()) # Remove spaces.
command = 'tetgen -BFENkACp%s %s' % (qopts, filename)
args = shlex.split(command)
subprocess.call(args)
root, ext = op.splitext(filename)
mesh = | Mesh.from_file(root + '.1.vtk') | sfepy.discrete.fem.Mesh.from_file |
#!/usr/bin/env python
"""
Convert a mesh file from one SfePy-supported format to another.
Examples::
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s2.5
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1 -c 0
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.mesh --remesh='q2/0 a1e-8 O9/7 V'
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new2.mesh --remesh='rq2/0 a1e-8 O9/7 V'
"""
from __future__ import absolute_import
import sys
import os.path as op
from six.moves import range
sys.path.append('.')
from argparse import ArgumentParser, RawDescriptionHelpFormatter
from sfepy.base.base import nm, output
from sfepy.base.ioutils import remove_files
from sfepy.discrete.fem import Mesh, FEDomain
from sfepy.discrete.fem.meshio import (output_mesh_formats, MeshIO,
supported_cell_types)
from sfepy.discrete.fem.mesh import fix_double_nodes
from sfepy.mesh.mesh_tools import elems_q2t
helps = {
'scale' : 'scale factor (float or comma-separated list for each axis)'
' [default: %(default)s]',
'center' : 'center of the output mesh (0 for origin or'
' comma-separated list for each axis) applied after scaling'
' [default: %(default)s]',
'refine' : 'uniform refinement level [default: %(default)s]',
'format' : 'output mesh format (overrides filename_out extension)',
'list' : 'list supported readable/writable output mesh formats',
'merge' : 'remove duplicate vertices',
'tri-tetra' : 'convert elements: quad->tri, hexa->tetra',
'2d' : 'force a 2D mesh by removing the z coordinates - assumes a 3D mesh'
' in the xy plane',
'save-per-mat': 'extract cells by material id and save them into'
' separate mesh files with a name based on filename_out and the id'
' numbers (preserves original mesh vertices)',
'remesh' : """when given, remesh the given mesh using tetgen.
The options can be the following, separated by spaces, in this order: 1.
"r" causes remeshing of the mesh volume - if not present the mesh surface
is extracted and used for the volume mesh generation. 2.
"q[<float>/<float>]" (required) - the two numbers after "q" are a maximum
radius-edge ratio bound and a minimum dihedral angle bound. 3. "a<float>"
(optional) - the number imposes a maximum volume constraint on all
tetrahedra. 4. O[<0-9>/<0-7>] - the two numbers correspond to a mesh
optimization level and a choice of optimizing operations. 5. "V"
(optional) - if present, mesh statistics are printed. Consult the tetgen
documentation for details.""",
}
def _parse_val_or_vec(option, name, parser):
if option is not None:
try:
try:
option = float(option)
except ValueError:
option = [float(ii) for ii in option.split(',')]
option = nm.array(option, dtype=nm.float64, ndmin=1)
except:
output('bad %s! (%s)' % (name, option))
parser.print_help()
sys.exit(1)
return option
def main():
parser = ArgumentParser(description=__doc__,
formatter_class=RawDescriptionHelpFormatter)
parser.add_argument('-s', '--scale', metavar='scale',
action='store', dest='scale',
default=None, help=helps['scale'])
parser.add_argument('-c', '--center', metavar='center',
action='store', dest='center',
default=None, help=helps['center'])
parser.add_argument('-r', '--refine', metavar='level',
action='store', type=int, dest='refine',
default=0, help=helps['refine'])
parser.add_argument('-f', '--format', metavar='format',
action='store', type=str, dest='format',
default=None, help=helps['format'])
parser.add_argument('-l', '--list', action='store_true',
dest='list', help=helps['list'])
parser.add_argument('-m', '--merge', action='store_true',
dest='merge', help=helps['merge'])
parser.add_argument('-t', '--tri-tetra', action='store_true',
dest='tri_tetra', help=helps['tri-tetra'])
parser.add_argument('-2', '--2d', action='store_true',
dest='force_2d', help=helps['2d'])
parser.add_argument('--save-per-mat', action='store_true',
dest='save_per_mat', help=helps['save-per-mat'])
parser.add_argument('--remesh', metavar='options',
action='store', dest='remesh',
default=None, help=helps['remesh'])
parser.add_argument('filename_in')
parser.add_argument('filename_out')
options = parser.parse_args()
if options.list:
output('Supported readable mesh formats:')
output('--------------------------------')
output_mesh_formats('r')
output('')
output('Supported writable mesh formats:')
output('--------------------------------')
output_mesh_formats('w')
sys.exit(0)
scale = _parse_val_or_vec(options.scale, 'scale', parser)
center = _parse_val_or_vec(options.center, 'center', parser)
filename_in = options.filename_in
filename_out = options.filename_out
if options.remesh:
import tempfile
import shlex
import subprocess
dirname = tempfile.mkdtemp()
is_surface = options.remesh.startswith('q')
if is_surface:
mesh = Mesh.from_file(filename_in)
domain = FEDomain(mesh.name, mesh)
region = domain.create_region('surf', 'vertices of surface',
'facet')
surf_mesh = Mesh.from_region(region, mesh,
localize=True, is_surface=True)
filename = op.join(dirname, 'surf.mesh')
surf_mesh.write(filename, io='auto')
else:
import shutil
shutil.copy(filename_in, dirname)
filename = op.join(dirname, op.basename(filename_in))
qopts = ''.join(options.remesh.split()) # Remove spaces.
command = 'tetgen -BFENkACp%s %s' % (qopts, filename)
args = shlex.split(command)
subprocess.call(args)
root, ext = op.splitext(filename)
mesh = Mesh.from_file(root + '.1.vtk')
| remove_files(dirname) | sfepy.base.ioutils.remove_files |
#!/usr/bin/env python
"""
Convert a mesh file from one SfePy-supported format to another.
Examples::
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s2.5
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1 -c 0
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.mesh --remesh='q2/0 a1e-8 O9/7 V'
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new2.mesh --remesh='rq2/0 a1e-8 O9/7 V'
"""
from __future__ import absolute_import
import sys
import os.path as op
from six.moves import range
sys.path.append('.')
from argparse import ArgumentParser, RawDescriptionHelpFormatter
from sfepy.base.base import nm, output
from sfepy.base.ioutils import remove_files
from sfepy.discrete.fem import Mesh, FEDomain
from sfepy.discrete.fem.meshio import (output_mesh_formats, MeshIO,
supported_cell_types)
from sfepy.discrete.fem.mesh import fix_double_nodes
from sfepy.mesh.mesh_tools import elems_q2t
helps = {
'scale' : 'scale factor (float or comma-separated list for each axis)'
' [default: %(default)s]',
'center' : 'center of the output mesh (0 for origin or'
' comma-separated list for each axis) applied after scaling'
' [default: %(default)s]',
'refine' : 'uniform refinement level [default: %(default)s]',
'format' : 'output mesh format (overrides filename_out extension)',
'list' : 'list supported readable/writable output mesh formats',
'merge' : 'remove duplicate vertices',
'tri-tetra' : 'convert elements: quad->tri, hexa->tetra',
'2d' : 'force a 2D mesh by removing the z coordinates - assumes a 3D mesh'
' in the xy plane',
'save-per-mat': 'extract cells by material id and save them into'
' separate mesh files with a name based on filename_out and the id'
' numbers (preserves original mesh vertices)',
'remesh' : """when given, remesh the given mesh using tetgen.
The options can be the following, separated by spaces, in this order: 1.
"r" causes remeshing of the mesh volume - if not present the mesh surface
is extracted and used for the volume mesh generation. 2.
"q[<float>/<float>]" (required) - the two numbers after "q" are a maximum
radius-edge ratio bound and a minimum dihedral angle bound. 3. "a<float>"
(optional) - the number imposes a maximum volume constraint on all
tetrahedra. 4. O[<0-9>/<0-7>] - the two numbers correspond to a mesh
optimization level and a choice of optimizing operations. 5. "V"
(optional) - if present, mesh statistics are printed. Consult the tetgen
documentation for details.""",
}
def _parse_val_or_vec(option, name, parser):
if option is not None:
try:
try:
option = float(option)
except ValueError:
option = [float(ii) for ii in option.split(',')]
option = nm.array(option, dtype=nm.float64, ndmin=1)
except:
output('bad %s! (%s)' % (name, option))
parser.print_help()
sys.exit(1)
return option
def main():
parser = ArgumentParser(description=__doc__,
formatter_class=RawDescriptionHelpFormatter)
parser.add_argument('-s', '--scale', metavar='scale',
action='store', dest='scale',
default=None, help=helps['scale'])
parser.add_argument('-c', '--center', metavar='center',
action='store', dest='center',
default=None, help=helps['center'])
parser.add_argument('-r', '--refine', metavar='level',
action='store', type=int, dest='refine',
default=0, help=helps['refine'])
parser.add_argument('-f', '--format', metavar='format',
action='store', type=str, dest='format',
default=None, help=helps['format'])
parser.add_argument('-l', '--list', action='store_true',
dest='list', help=helps['list'])
parser.add_argument('-m', '--merge', action='store_true',
dest='merge', help=helps['merge'])
parser.add_argument('-t', '--tri-tetra', action='store_true',
dest='tri_tetra', help=helps['tri-tetra'])
parser.add_argument('-2', '--2d', action='store_true',
dest='force_2d', help=helps['2d'])
parser.add_argument('--save-per-mat', action='store_true',
dest='save_per_mat', help=helps['save-per-mat'])
parser.add_argument('--remesh', metavar='options',
action='store', dest='remesh',
default=None, help=helps['remesh'])
parser.add_argument('filename_in')
parser.add_argument('filename_out')
options = parser.parse_args()
if options.list:
output('Supported readable mesh formats:')
output('--------------------------------')
output_mesh_formats('r')
output('')
output('Supported writable mesh formats:')
output('--------------------------------')
output_mesh_formats('w')
sys.exit(0)
scale = _parse_val_or_vec(options.scale, 'scale', parser)
center = _parse_val_or_vec(options.center, 'center', parser)
filename_in = options.filename_in
filename_out = options.filename_out
if options.remesh:
import tempfile
import shlex
import subprocess
dirname = tempfile.mkdtemp()
is_surface = options.remesh.startswith('q')
if is_surface:
mesh = Mesh.from_file(filename_in)
domain = FEDomain(mesh.name, mesh)
region = domain.create_region('surf', 'vertices of surface',
'facet')
surf_mesh = Mesh.from_region(region, mesh,
localize=True, is_surface=True)
filename = op.join(dirname, 'surf.mesh')
surf_mesh.write(filename, io='auto')
else:
import shutil
shutil.copy(filename_in, dirname)
filename = op.join(dirname, op.basename(filename_in))
qopts = ''.join(options.remesh.split()) # Remove spaces.
command = 'tetgen -BFENkACp%s %s' % (qopts, filename)
args = shlex.split(command)
subprocess.call(args)
root, ext = op.splitext(filename)
mesh = Mesh.from_file(root + '.1.vtk')
remove_files(dirname)
else:
mesh = | Mesh.from_file(filename_in) | sfepy.discrete.fem.Mesh.from_file |
#!/usr/bin/env python
"""
Convert a mesh file from one SfePy-supported format to another.
Examples::
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s2.5
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1 -c 0
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.mesh --remesh='q2/0 a1e-8 O9/7 V'
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new2.mesh --remesh='rq2/0 a1e-8 O9/7 V'
"""
from __future__ import absolute_import
import sys
import os.path as op
from six.moves import range
sys.path.append('.')
from argparse import ArgumentParser, RawDescriptionHelpFormatter
from sfepy.base.base import nm, output
from sfepy.base.ioutils import remove_files
from sfepy.discrete.fem import Mesh, FEDomain
from sfepy.discrete.fem.meshio import (output_mesh_formats, MeshIO,
supported_cell_types)
from sfepy.discrete.fem.mesh import fix_double_nodes
from sfepy.mesh.mesh_tools import elems_q2t
helps = {
'scale' : 'scale factor (float or comma-separated list for each axis)'
' [default: %(default)s]',
'center' : 'center of the output mesh (0 for origin or'
' comma-separated list for each axis) applied after scaling'
' [default: %(default)s]',
'refine' : 'uniform refinement level [default: %(default)s]',
'format' : 'output mesh format (overrides filename_out extension)',
'list' : 'list supported readable/writable output mesh formats',
'merge' : 'remove duplicate vertices',
'tri-tetra' : 'convert elements: quad->tri, hexa->tetra',
'2d' : 'force a 2D mesh by removing the z coordinates - assumes a 3D mesh'
' in the xy plane',
'save-per-mat': 'extract cells by material id and save them into'
' separate mesh files with a name based on filename_out and the id'
' numbers (preserves original mesh vertices)',
'remesh' : """when given, remesh the given mesh using tetgen.
The options can be the following, separated by spaces, in this order: 1.
"r" causes remeshing of the mesh volume - if not present the mesh surface
is extracted and used for the volume mesh generation. 2.
"q[<float>/<float>]" (required) - the two numbers after "q" are a maximum
radius-edge ratio bound and a minimum dihedral angle bound. 3. "a<float>"
(optional) - the number imposes a maximum volume constraint on all
tetrahedra. 4. O[<0-9>/<0-7>] - the two numbers correspond to a mesh
optimization level and a choice of optimizing operations. 5. "V"
(optional) - if present, mesh statistics are printed. Consult the tetgen
documentation for details.""",
}
def _parse_val_or_vec(option, name, parser):
if option is not None:
try:
try:
option = float(option)
except ValueError:
option = [float(ii) for ii in option.split(',')]
option = nm.array(option, dtype=nm.float64, ndmin=1)
except:
output('bad %s! (%s)' % (name, option))
parser.print_help()
sys.exit(1)
return option
def main():
parser = ArgumentParser(description=__doc__,
formatter_class=RawDescriptionHelpFormatter)
parser.add_argument('-s', '--scale', metavar='scale',
action='store', dest='scale',
default=None, help=helps['scale'])
parser.add_argument('-c', '--center', metavar='center',
action='store', dest='center',
default=None, help=helps['center'])
parser.add_argument('-r', '--refine', metavar='level',
action='store', type=int, dest='refine',
default=0, help=helps['refine'])
parser.add_argument('-f', '--format', metavar='format',
action='store', type=str, dest='format',
default=None, help=helps['format'])
parser.add_argument('-l', '--list', action='store_true',
dest='list', help=helps['list'])
parser.add_argument('-m', '--merge', action='store_true',
dest='merge', help=helps['merge'])
parser.add_argument('-t', '--tri-tetra', action='store_true',
dest='tri_tetra', help=helps['tri-tetra'])
parser.add_argument('-2', '--2d', action='store_true',
dest='force_2d', help=helps['2d'])
parser.add_argument('--save-per-mat', action='store_true',
dest='save_per_mat', help=helps['save-per-mat'])
parser.add_argument('--remesh', metavar='options',
action='store', dest='remesh',
default=None, help=helps['remesh'])
parser.add_argument('filename_in')
parser.add_argument('filename_out')
options = parser.parse_args()
if options.list:
output('Supported readable mesh formats:')
output('--------------------------------')
output_mesh_formats('r')
output('')
output('Supported writable mesh formats:')
output('--------------------------------')
output_mesh_formats('w')
sys.exit(0)
scale = _parse_val_or_vec(options.scale, 'scale', parser)
center = _parse_val_or_vec(options.center, 'center', parser)
filename_in = options.filename_in
filename_out = options.filename_out
if options.remesh:
import tempfile
import shlex
import subprocess
dirname = tempfile.mkdtemp()
is_surface = options.remesh.startswith('q')
if is_surface:
mesh = Mesh.from_file(filename_in)
domain = FEDomain(mesh.name, mesh)
region = domain.create_region('surf', 'vertices of surface',
'facet')
surf_mesh = Mesh.from_region(region, mesh,
localize=True, is_surface=True)
filename = op.join(dirname, 'surf.mesh')
surf_mesh.write(filename, io='auto')
else:
import shutil
shutil.copy(filename_in, dirname)
filename = op.join(dirname, op.basename(filename_in))
qopts = ''.join(options.remesh.split()) # Remove spaces.
command = 'tetgen -BFENkACp%s %s' % (qopts, filename)
args = shlex.split(command)
subprocess.call(args)
root, ext = op.splitext(filename)
mesh = Mesh.from_file(root + '.1.vtk')
remove_files(dirname)
else:
mesh = Mesh.from_file(filename_in)
if options.force_2d:
data = list(mesh._get_io_data())
data[0] = data[0][:, :2]
mesh = | Mesh.from_data(mesh.name, *data) | sfepy.discrete.fem.Mesh.from_data |
#!/usr/bin/env python
"""
Convert a mesh file from one SfePy-supported format to another.
Examples::
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s2.5
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1 -c 0
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.mesh --remesh='q2/0 a1e-8 O9/7 V'
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new2.mesh --remesh='rq2/0 a1e-8 O9/7 V'
"""
from __future__ import absolute_import
import sys
import os.path as op
from six.moves import range
sys.path.append('.')
from argparse import ArgumentParser, RawDescriptionHelpFormatter
from sfepy.base.base import nm, output
from sfepy.base.ioutils import remove_files
from sfepy.discrete.fem import Mesh, FEDomain
from sfepy.discrete.fem.meshio import (output_mesh_formats, MeshIO,
supported_cell_types)
from sfepy.discrete.fem.mesh import fix_double_nodes
from sfepy.mesh.mesh_tools import elems_q2t
helps = {
'scale' : 'scale factor (float or comma-separated list for each axis)'
' [default: %(default)s]',
'center' : 'center of the output mesh (0 for origin or'
' comma-separated list for each axis) applied after scaling'
' [default: %(default)s]',
'refine' : 'uniform refinement level [default: %(default)s]',
'format' : 'output mesh format (overrides filename_out extension)',
'list' : 'list supported readable/writable output mesh formats',
'merge' : 'remove duplicate vertices',
'tri-tetra' : 'convert elements: quad->tri, hexa->tetra',
'2d' : 'force a 2D mesh by removing the z coordinates - assumes a 3D mesh'
' in the xy plane',
'save-per-mat': 'extract cells by material id and save them into'
' separate mesh files with a name based on filename_out and the id'
' numbers (preserves original mesh vertices)',
'remesh' : """when given, remesh the given mesh using tetgen.
The options can be the following, separated by spaces, in this order: 1.
"r" causes remeshing of the mesh volume - if not present the mesh surface
is extracted and used for the volume mesh generation. 2.
"q[<float>/<float>]" (required) - the two numbers after "q" are a maximum
radius-edge ratio bound and a minimum dihedral angle bound. 3. "a<float>"
(optional) - the number imposes a maximum volume constraint on all
tetrahedra. 4. O[<0-9>/<0-7>] - the two numbers correspond to a mesh
optimization level and a choice of optimizing operations. 5. "V"
(optional) - if present, mesh statistics are printed. Consult the tetgen
documentation for details.""",
}
def _parse_val_or_vec(option, name, parser):
if option is not None:
try:
try:
option = float(option)
except ValueError:
option = [float(ii) for ii in option.split(',')]
option = nm.array(option, dtype=nm.float64, ndmin=1)
except:
output('bad %s! (%s)' % (name, option))
parser.print_help()
sys.exit(1)
return option
def main():
parser = ArgumentParser(description=__doc__,
formatter_class=RawDescriptionHelpFormatter)
parser.add_argument('-s', '--scale', metavar='scale',
action='store', dest='scale',
default=None, help=helps['scale'])
parser.add_argument('-c', '--center', metavar='center',
action='store', dest='center',
default=None, help=helps['center'])
parser.add_argument('-r', '--refine', metavar='level',
action='store', type=int, dest='refine',
default=0, help=helps['refine'])
parser.add_argument('-f', '--format', metavar='format',
action='store', type=str, dest='format',
default=None, help=helps['format'])
parser.add_argument('-l', '--list', action='store_true',
dest='list', help=helps['list'])
parser.add_argument('-m', '--merge', action='store_true',
dest='merge', help=helps['merge'])
parser.add_argument('-t', '--tri-tetra', action='store_true',
dest='tri_tetra', help=helps['tri-tetra'])
parser.add_argument('-2', '--2d', action='store_true',
dest='force_2d', help=helps['2d'])
parser.add_argument('--save-per-mat', action='store_true',
dest='save_per_mat', help=helps['save-per-mat'])
parser.add_argument('--remesh', metavar='options',
action='store', dest='remesh',
default=None, help=helps['remesh'])
parser.add_argument('filename_in')
parser.add_argument('filename_out')
options = parser.parse_args()
if options.list:
output('Supported readable mesh formats:')
output('--------------------------------')
output_mesh_formats('r')
output('')
output('Supported writable mesh formats:')
output('--------------------------------')
output_mesh_formats('w')
sys.exit(0)
scale = _parse_val_or_vec(options.scale, 'scale', parser)
center = _parse_val_or_vec(options.center, 'center', parser)
filename_in = options.filename_in
filename_out = options.filename_out
if options.remesh:
import tempfile
import shlex
import subprocess
dirname = tempfile.mkdtemp()
is_surface = options.remesh.startswith('q')
if is_surface:
mesh = Mesh.from_file(filename_in)
domain = FEDomain(mesh.name, mesh)
region = domain.create_region('surf', 'vertices of surface',
'facet')
surf_mesh = Mesh.from_region(region, mesh,
localize=True, is_surface=True)
filename = op.join(dirname, 'surf.mesh')
surf_mesh.write(filename, io='auto')
else:
import shutil
shutil.copy(filename_in, dirname)
filename = op.join(dirname, op.basename(filename_in))
qopts = ''.join(options.remesh.split()) # Remove spaces.
command = 'tetgen -BFENkACp%s %s' % (qopts, filename)
args = shlex.split(command)
subprocess.call(args)
root, ext = op.splitext(filename)
mesh = Mesh.from_file(root + '.1.vtk')
remove_files(dirname)
else:
mesh = Mesh.from_file(filename_in)
if options.force_2d:
data = list(mesh._get_io_data())
data[0] = data[0][:, :2]
mesh = Mesh.from_data(mesh.name, *data)
if scale is not None:
if len(scale) == 1:
tr = nm.eye(mesh.dim, dtype=nm.float64) * scale
elif len(scale) == mesh.dim:
tr = nm.diag(scale)
else:
raise ValueError('bad scale! (%s)' % scale)
mesh.transform_coors(tr)
if center is not None:
cc = 0.5 * mesh.get_bounding_box().sum(0)
shift = center - cc
tr = nm.c_[nm.eye(mesh.dim, dtype=nm.float64), shift[:, None]]
mesh.transform_coors(tr)
if options.refine > 0:
domain = | FEDomain(mesh.name, mesh) | sfepy.discrete.fem.FEDomain |
#!/usr/bin/env python
"""
Convert a mesh file from one SfePy-supported format to another.
Examples::
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s2.5
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1 -c 0
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.mesh --remesh='q2/0 a1e-8 O9/7 V'
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new2.mesh --remesh='rq2/0 a1e-8 O9/7 V'
"""
from __future__ import absolute_import
import sys
import os.path as op
from six.moves import range
sys.path.append('.')
from argparse import ArgumentParser, RawDescriptionHelpFormatter
from sfepy.base.base import nm, output
from sfepy.base.ioutils import remove_files
from sfepy.discrete.fem import Mesh, FEDomain
from sfepy.discrete.fem.meshio import (output_mesh_formats, MeshIO,
supported_cell_types)
from sfepy.discrete.fem.mesh import fix_double_nodes
from sfepy.mesh.mesh_tools import elems_q2t
helps = {
'scale' : 'scale factor (float or comma-separated list for each axis)'
' [default: %(default)s]',
'center' : 'center of the output mesh (0 for origin or'
' comma-separated list for each axis) applied after scaling'
' [default: %(default)s]',
'refine' : 'uniform refinement level [default: %(default)s]',
'format' : 'output mesh format (overrides filename_out extension)',
'list' : 'list supported readable/writable output mesh formats',
'merge' : 'remove duplicate vertices',
'tri-tetra' : 'convert elements: quad->tri, hexa->tetra',
'2d' : 'force a 2D mesh by removing the z coordinates - assumes a 3D mesh'
' in the xy plane',
'save-per-mat': 'extract cells by material id and save them into'
' separate mesh files with a name based on filename_out and the id'
' numbers (preserves original mesh vertices)',
'remesh' : """when given, remesh the given mesh using tetgen.
The options can be the following, separated by spaces, in this order: 1.
"r" causes remeshing of the mesh volume - if not present the mesh surface
is extracted and used for the volume mesh generation. 2.
"q[<float>/<float>]" (required) - the two numbers after "q" are a maximum
radius-edge ratio bound and a minimum dihedral angle bound. 3. "a<float>"
(optional) - the number imposes a maximum volume constraint on all
tetrahedra. 4. O[<0-9>/<0-7>] - the two numbers correspond to a mesh
optimization level and a choice of optimizing operations. 5. "V"
(optional) - if present, mesh statistics are printed. Consult the tetgen
documentation for details.""",
}
def _parse_val_or_vec(option, name, parser):
if option is not None:
try:
try:
option = float(option)
except ValueError:
option = [float(ii) for ii in option.split(',')]
option = nm.array(option, dtype=nm.float64, ndmin=1)
except:
output('bad %s! (%s)' % (name, option))
parser.print_help()
sys.exit(1)
return option
def main():
parser = ArgumentParser(description=__doc__,
formatter_class=RawDescriptionHelpFormatter)
parser.add_argument('-s', '--scale', metavar='scale',
action='store', dest='scale',
default=None, help=helps['scale'])
parser.add_argument('-c', '--center', metavar='center',
action='store', dest='center',
default=None, help=helps['center'])
parser.add_argument('-r', '--refine', metavar='level',
action='store', type=int, dest='refine',
default=0, help=helps['refine'])
parser.add_argument('-f', '--format', metavar='format',
action='store', type=str, dest='format',
default=None, help=helps['format'])
parser.add_argument('-l', '--list', action='store_true',
dest='list', help=helps['list'])
parser.add_argument('-m', '--merge', action='store_true',
dest='merge', help=helps['merge'])
parser.add_argument('-t', '--tri-tetra', action='store_true',
dest='tri_tetra', help=helps['tri-tetra'])
parser.add_argument('-2', '--2d', action='store_true',
dest='force_2d', help=helps['2d'])
parser.add_argument('--save-per-mat', action='store_true',
dest='save_per_mat', help=helps['save-per-mat'])
parser.add_argument('--remesh', metavar='options',
action='store', dest='remesh',
default=None, help=helps['remesh'])
parser.add_argument('filename_in')
parser.add_argument('filename_out')
options = parser.parse_args()
if options.list:
output('Supported readable mesh formats:')
output('--------------------------------')
output_mesh_formats('r')
output('')
output('Supported writable mesh formats:')
output('--------------------------------')
output_mesh_formats('w')
sys.exit(0)
scale = _parse_val_or_vec(options.scale, 'scale', parser)
center = _parse_val_or_vec(options.center, 'center', parser)
filename_in = options.filename_in
filename_out = options.filename_out
if options.remesh:
import tempfile
import shlex
import subprocess
dirname = tempfile.mkdtemp()
is_surface = options.remesh.startswith('q')
if is_surface:
mesh = Mesh.from_file(filename_in)
domain = FEDomain(mesh.name, mesh)
region = domain.create_region('surf', 'vertices of surface',
'facet')
surf_mesh = Mesh.from_region(region, mesh,
localize=True, is_surface=True)
filename = op.join(dirname, 'surf.mesh')
surf_mesh.write(filename, io='auto')
else:
import shutil
shutil.copy(filename_in, dirname)
filename = op.join(dirname, op.basename(filename_in))
qopts = ''.join(options.remesh.split()) # Remove spaces.
command = 'tetgen -BFENkACp%s %s' % (qopts, filename)
args = shlex.split(command)
subprocess.call(args)
root, ext = op.splitext(filename)
mesh = Mesh.from_file(root + '.1.vtk')
remove_files(dirname)
else:
mesh = Mesh.from_file(filename_in)
if options.force_2d:
data = list(mesh._get_io_data())
data[0] = data[0][:, :2]
mesh = Mesh.from_data(mesh.name, *data)
if scale is not None:
if len(scale) == 1:
tr = nm.eye(mesh.dim, dtype=nm.float64) * scale
elif len(scale) == mesh.dim:
tr = nm.diag(scale)
else:
raise ValueError('bad scale! (%s)' % scale)
mesh.transform_coors(tr)
if center is not None:
cc = 0.5 * mesh.get_bounding_box().sum(0)
shift = center - cc
tr = nm.c_[nm.eye(mesh.dim, dtype=nm.float64), shift[:, None]]
mesh.transform_coors(tr)
if options.refine > 0:
domain = FEDomain(mesh.name, mesh)
output('initial mesh: %d nodes %d elements'
% (domain.shape.n_nod, domain.shape.n_el))
for ii in range(options.refine):
output('refine %d...' % ii)
domain = domain.refine()
output('... %d nodes %d elements'
% (domain.shape.n_nod, domain.shape.n_el))
mesh = domain.mesh
if options.tri_tetra > 0:
conns = None
for k, new_desc in [('3_8', '3_4'), ('2_4', '2_3')]:
if k in mesh.descs:
conns = mesh.get_conn(k)
break
if conns is not None:
nelo = conns.shape[0]
output('initial mesh: %d elements' % nelo)
new_conns = elems_q2t(conns)
nn = new_conns.shape[0] // nelo
new_cgroups = nm.repeat(mesh.cmesh.cell_groups, nn)
output('new mesh: %d elements' % new_conns.shape[0])
mesh = Mesh.from_data(mesh.name, mesh.coors,
mesh.cmesh.vertex_groups,
[new_conns], [new_cgroups], [new_desc])
if options.merge:
desc = mesh.descs[0]
coor, ngroups, conns = fix_double_nodes(mesh.coors,
mesh.cmesh.vertex_groups,
mesh.get_conn(desc), 1e-9)
mesh = Mesh.from_data(mesh.name + '_merged',
coor, ngroups,
[conns], [mesh.cmesh.cell_groups], [desc])
if options.save_per_mat:
desc = mesh.descs[0]
conns, cgroups = mesh.get_conn(desc), mesh.cmesh.cell_groups
coors, ngroups = mesh.coors, mesh.cmesh.vertex_groups
mat_ids = | nm.unique(cgroups) | sfepy.base.base.nm.unique |
#!/usr/bin/env python
"""
Convert a mesh file from one SfePy-supported format to another.
Examples::
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s2.5
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1 -c 0
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.mesh --remesh='q2/0 a1e-8 O9/7 V'
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new2.mesh --remesh='rq2/0 a1e-8 O9/7 V'
"""
from __future__ import absolute_import
import sys
import os.path as op
from six.moves import range
sys.path.append('.')
from argparse import ArgumentParser, RawDescriptionHelpFormatter
from sfepy.base.base import nm, output
from sfepy.base.ioutils import remove_files
from sfepy.discrete.fem import Mesh, FEDomain
from sfepy.discrete.fem.meshio import (output_mesh_formats, MeshIO,
supported_cell_types)
from sfepy.discrete.fem.mesh import fix_double_nodes
from sfepy.mesh.mesh_tools import elems_q2t
helps = {
'scale' : 'scale factor (float or comma-separated list for each axis)'
' [default: %(default)s]',
'center' : 'center of the output mesh (0 for origin or'
' comma-separated list for each axis) applied after scaling'
' [default: %(default)s]',
'refine' : 'uniform refinement level [default: %(default)s]',
'format' : 'output mesh format (overrides filename_out extension)',
'list' : 'list supported readable/writable output mesh formats',
'merge' : 'remove duplicate vertices',
'tri-tetra' : 'convert elements: quad->tri, hexa->tetra',
'2d' : 'force a 2D mesh by removing the z coordinates - assumes a 3D mesh'
' in the xy plane',
'save-per-mat': 'extract cells by material id and save them into'
' separate mesh files with a name based on filename_out and the id'
' numbers (preserves original mesh vertices)',
'remesh' : """when given, remesh the given mesh using tetgen.
The options can be the following, separated by spaces, in this order: 1.
"r" causes remeshing of the mesh volume - if not present the mesh surface
is extracted and used for the volume mesh generation. 2.
"q[<float>/<float>]" (required) - the two numbers after "q" are a maximum
radius-edge ratio bound and a minimum dihedral angle bound. 3. "a<float>"
(optional) - the number imposes a maximum volume constraint on all
tetrahedra. 4. O[<0-9>/<0-7>] - the two numbers correspond to a mesh
optimization level and a choice of optimizing operations. 5. "V"
(optional) - if present, mesh statistics are printed. Consult the tetgen
documentation for details.""",
}
def _parse_val_or_vec(option, name, parser):
if option is not None:
try:
try:
option = float(option)
except ValueError:
option = [float(ii) for ii in option.split(',')]
option = | nm.array(option, dtype=nm.float64, ndmin=1) | sfepy.base.base.nm.array |
#!/usr/bin/env python
"""
Convert a mesh file from one SfePy-supported format to another.
Examples::
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s2.5
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1 -c 0
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.mesh --remesh='q2/0 a1e-8 O9/7 V'
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new2.mesh --remesh='rq2/0 a1e-8 O9/7 V'
"""
from __future__ import absolute_import
import sys
import os.path as op
from six.moves import range
sys.path.append('.')
from argparse import ArgumentParser, RawDescriptionHelpFormatter
from sfepy.base.base import nm, output
from sfepy.base.ioutils import remove_files
from sfepy.discrete.fem import Mesh, FEDomain
from sfepy.discrete.fem.meshio import (output_mesh_formats, MeshIO,
supported_cell_types)
from sfepy.discrete.fem.mesh import fix_double_nodes
from sfepy.mesh.mesh_tools import elems_q2t
helps = {
'scale' : 'scale factor (float or comma-separated list for each axis)'
' [default: %(default)s]',
'center' : 'center of the output mesh (0 for origin or'
' comma-separated list for each axis) applied after scaling'
' [default: %(default)s]',
'refine' : 'uniform refinement level [default: %(default)s]',
'format' : 'output mesh format (overrides filename_out extension)',
'list' : 'list supported readable/writable output mesh formats',
'merge' : 'remove duplicate vertices',
'tri-tetra' : 'convert elements: quad->tri, hexa->tetra',
'2d' : 'force a 2D mesh by removing the z coordinates - assumes a 3D mesh'
' in the xy plane',
'save-per-mat': 'extract cells by material id and save them into'
' separate mesh files with a name based on filename_out and the id'
' numbers (preserves original mesh vertices)',
'remesh' : """when given, remesh the given mesh using tetgen.
The options can be the following, separated by spaces, in this order: 1.
"r" causes remeshing of the mesh volume - if not present the mesh surface
is extracted and used for the volume mesh generation. 2.
"q[<float>/<float>]" (required) - the two numbers after "q" are a maximum
radius-edge ratio bound and a minimum dihedral angle bound. 3. "a<float>"
(optional) - the number imposes a maximum volume constraint on all
tetrahedra. 4. O[<0-9>/<0-7>] - the two numbers correspond to a mesh
optimization level and a choice of optimizing operations. 5. "V"
(optional) - if present, mesh statistics are printed. Consult the tetgen
documentation for details.""",
}
def _parse_val_or_vec(option, name, parser):
if option is not None:
try:
try:
option = float(option)
except ValueError:
option = [float(ii) for ii in option.split(',')]
option = nm.array(option, dtype=nm.float64, ndmin=1)
except:
output('bad %s! (%s)' % (name, option))
parser.print_help()
sys.exit(1)
return option
def main():
parser = ArgumentParser(description=__doc__,
formatter_class=RawDescriptionHelpFormatter)
parser.add_argument('-s', '--scale', metavar='scale',
action='store', dest='scale',
default=None, help=helps['scale'])
parser.add_argument('-c', '--center', metavar='center',
action='store', dest='center',
default=None, help=helps['center'])
parser.add_argument('-r', '--refine', metavar='level',
action='store', type=int, dest='refine',
default=0, help=helps['refine'])
parser.add_argument('-f', '--format', metavar='format',
action='store', type=str, dest='format',
default=None, help=helps['format'])
parser.add_argument('-l', '--list', action='store_true',
dest='list', help=helps['list'])
parser.add_argument('-m', '--merge', action='store_true',
dest='merge', help=helps['merge'])
parser.add_argument('-t', '--tri-tetra', action='store_true',
dest='tri_tetra', help=helps['tri-tetra'])
parser.add_argument('-2', '--2d', action='store_true',
dest='force_2d', help=helps['2d'])
parser.add_argument('--save-per-mat', action='store_true',
dest='save_per_mat', help=helps['save-per-mat'])
parser.add_argument('--remesh', metavar='options',
action='store', dest='remesh',
default=None, help=helps['remesh'])
parser.add_argument('filename_in')
parser.add_argument('filename_out')
options = parser.parse_args()
if options.list:
output('Supported readable mesh formats:')
output('--------------------------------')
output_mesh_formats('r')
output('')
output('Supported writable mesh formats:')
output('--------------------------------')
output_mesh_formats('w')
sys.exit(0)
scale = _parse_val_or_vec(options.scale, 'scale', parser)
center = _parse_val_or_vec(options.center, 'center', parser)
filename_in = options.filename_in
filename_out = options.filename_out
if options.remesh:
import tempfile
import shlex
import subprocess
dirname = tempfile.mkdtemp()
is_surface = options.remesh.startswith('q')
if is_surface:
mesh = | Mesh.from_file(filename_in) | sfepy.discrete.fem.Mesh.from_file |
#!/usr/bin/env python
"""
Convert a mesh file from one SfePy-supported format to another.
Examples::
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s2.5
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1 -c 0
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.mesh --remesh='q2/0 a1e-8 O9/7 V'
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new2.mesh --remesh='rq2/0 a1e-8 O9/7 V'
"""
from __future__ import absolute_import
import sys
import os.path as op
from six.moves import range
sys.path.append('.')
from argparse import ArgumentParser, RawDescriptionHelpFormatter
from sfepy.base.base import nm, output
from sfepy.base.ioutils import remove_files
from sfepy.discrete.fem import Mesh, FEDomain
from sfepy.discrete.fem.meshio import (output_mesh_formats, MeshIO,
supported_cell_types)
from sfepy.discrete.fem.mesh import fix_double_nodes
from sfepy.mesh.mesh_tools import elems_q2t
helps = {
'scale' : 'scale factor (float or comma-separated list for each axis)'
' [default: %(default)s]',
'center' : 'center of the output mesh (0 for origin or'
' comma-separated list for each axis) applied after scaling'
' [default: %(default)s]',
'refine' : 'uniform refinement level [default: %(default)s]',
'format' : 'output mesh format (overrides filename_out extension)',
'list' : 'list supported readable/writable output mesh formats',
'merge' : 'remove duplicate vertices',
'tri-tetra' : 'convert elements: quad->tri, hexa->tetra',
'2d' : 'force a 2D mesh by removing the z coordinates - assumes a 3D mesh'
' in the xy plane',
'save-per-mat': 'extract cells by material id and save them into'
' separate mesh files with a name based on filename_out and the id'
' numbers (preserves original mesh vertices)',
'remesh' : """when given, remesh the given mesh using tetgen.
The options can be the following, separated by spaces, in this order: 1.
"r" causes remeshing of the mesh volume - if not present the mesh surface
is extracted and used for the volume mesh generation. 2.
"q[<float>/<float>]" (required) - the two numbers after "q" are a maximum
radius-edge ratio bound and a minimum dihedral angle bound. 3. "a<float>"
(optional) - the number imposes a maximum volume constraint on all
tetrahedra. 4. O[<0-9>/<0-7>] - the two numbers correspond to a mesh
optimization level and a choice of optimizing operations. 5. "V"
(optional) - if present, mesh statistics are printed. Consult the tetgen
documentation for details.""",
}
def _parse_val_or_vec(option, name, parser):
if option is not None:
try:
try:
option = float(option)
except ValueError:
option = [float(ii) for ii in option.split(',')]
option = nm.array(option, dtype=nm.float64, ndmin=1)
except:
output('bad %s! (%s)' % (name, option))
parser.print_help()
sys.exit(1)
return option
def main():
parser = ArgumentParser(description=__doc__,
formatter_class=RawDescriptionHelpFormatter)
parser.add_argument('-s', '--scale', metavar='scale',
action='store', dest='scale',
default=None, help=helps['scale'])
parser.add_argument('-c', '--center', metavar='center',
action='store', dest='center',
default=None, help=helps['center'])
parser.add_argument('-r', '--refine', metavar='level',
action='store', type=int, dest='refine',
default=0, help=helps['refine'])
parser.add_argument('-f', '--format', metavar='format',
action='store', type=str, dest='format',
default=None, help=helps['format'])
parser.add_argument('-l', '--list', action='store_true',
dest='list', help=helps['list'])
parser.add_argument('-m', '--merge', action='store_true',
dest='merge', help=helps['merge'])
parser.add_argument('-t', '--tri-tetra', action='store_true',
dest='tri_tetra', help=helps['tri-tetra'])
parser.add_argument('-2', '--2d', action='store_true',
dest='force_2d', help=helps['2d'])
parser.add_argument('--save-per-mat', action='store_true',
dest='save_per_mat', help=helps['save-per-mat'])
parser.add_argument('--remesh', metavar='options',
action='store', dest='remesh',
default=None, help=helps['remesh'])
parser.add_argument('filename_in')
parser.add_argument('filename_out')
options = parser.parse_args()
if options.list:
output('Supported readable mesh formats:')
output('--------------------------------')
output_mesh_formats('r')
output('')
output('Supported writable mesh formats:')
output('--------------------------------')
output_mesh_formats('w')
sys.exit(0)
scale = _parse_val_or_vec(options.scale, 'scale', parser)
center = _parse_val_or_vec(options.center, 'center', parser)
filename_in = options.filename_in
filename_out = options.filename_out
if options.remesh:
import tempfile
import shlex
import subprocess
dirname = tempfile.mkdtemp()
is_surface = options.remesh.startswith('q')
if is_surface:
mesh = Mesh.from_file(filename_in)
domain = | FEDomain(mesh.name, mesh) | sfepy.discrete.fem.FEDomain |
#!/usr/bin/env python
"""
Convert a mesh file from one SfePy-supported format to another.
Examples::
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s2.5
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.vtk -s0.5,2,1 -c 0
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new.mesh --remesh='q2/0 a1e-8 O9/7 V'
$ ./script/convert_mesh.py meshes/3d/cylinder.mesh new2.mesh --remesh='rq2/0 a1e-8 O9/7 V'
"""
from __future__ import absolute_import
import sys
import os.path as op
from six.moves import range
sys.path.append('.')
from argparse import ArgumentParser, RawDescriptionHelpFormatter
from sfepy.base.base import nm, output
from sfepy.base.ioutils import remove_files
from sfepy.discrete.fem import Mesh, FEDomain
from sfepy.discrete.fem.meshio import (output_mesh_formats, MeshIO,
supported_cell_types)
from sfepy.discrete.fem.mesh import fix_double_nodes
from sfepy.mesh.mesh_tools import elems_q2t
helps = {
'scale' : 'scale factor (float or comma-separated list for each axis)'
' [default: %(default)s]',
'center' : 'center of the output mesh (0 for origin or'
' comma-separated list for each axis) applied after scaling'
' [default: %(default)s]',
'refine' : 'uniform refinement level [default: %(default)s]',
'format' : 'output mesh format (overrides filename_out extension)',
'list' : 'list supported readable/writable output mesh formats',
'merge' : 'remove duplicate vertices',
'tri-tetra' : 'convert elements: quad->tri, hexa->tetra',
'2d' : 'force a 2D mesh by removing the z coordinates - assumes a 3D mesh'
' in the xy plane',
'save-per-mat': 'extract cells by material id and save them into'
' separate mesh files with a name based on filename_out and the id'
' numbers (preserves original mesh vertices)',
'remesh' : """when given, remesh the given mesh using tetgen.
The options can be the following, separated by spaces, in this order: 1.
"r" causes remeshing of the mesh volume - if not present the mesh surface
is extracted and used for the volume mesh generation. 2.
"q[<float>/<float>]" (required) - the two numbers after "q" are a maximum
radius-edge ratio bound and a minimum dihedral angle bound. 3. "a<float>"
(optional) - the number imposes a maximum volume constraint on all
tetrahedra. 4. O[<0-9>/<0-7>] - the two numbers correspond to a mesh
optimization level and a choice of optimizing operations. 5. "V"
(optional) - if present, mesh statistics are printed. Consult the tetgen
documentation for details.""",
}
def _parse_val_or_vec(option, name, parser):
if option is not None:
try:
try:
option = float(option)
except ValueError:
option = [float(ii) for ii in option.split(',')]
option = nm.array(option, dtype=nm.float64, ndmin=1)
except:
output('bad %s! (%s)' % (name, option))
parser.print_help()
sys.exit(1)
return option
def main():
parser = ArgumentParser(description=__doc__,
formatter_class=RawDescriptionHelpFormatter)
parser.add_argument('-s', '--scale', metavar='scale',
action='store', dest='scale',
default=None, help=helps['scale'])
parser.add_argument('-c', '--center', metavar='center',
action='store', dest='center',
default=None, help=helps['center'])
parser.add_argument('-r', '--refine', metavar='level',
action='store', type=int, dest='refine',
default=0, help=helps['refine'])
parser.add_argument('-f', '--format', metavar='format',
action='store', type=str, dest='format',
default=None, help=helps['format'])
parser.add_argument('-l', '--list', action='store_true',
dest='list', help=helps['list'])
parser.add_argument('-m', '--merge', action='store_true',
dest='merge', help=helps['merge'])
parser.add_argument('-t', '--tri-tetra', action='store_true',
dest='tri_tetra', help=helps['tri-tetra'])
parser.add_argument('-2', '--2d', action='store_true',
dest='force_2d', help=helps['2d'])
parser.add_argument('--save-per-mat', action='store_true',
dest='save_per_mat', help=helps['save-per-mat'])
parser.add_argument('--remesh', metavar='options',
action='store', dest='remesh',
default=None, help=helps['remesh'])
parser.add_argument('filename_in')
parser.add_argument('filename_out')
options = parser.parse_args()
if options.list:
output('Supported readable mesh formats:')
output('--------------------------------')
output_mesh_formats('r')
output('')
output('Supported writable mesh formats:')
output('--------------------------------')
output_mesh_formats('w')
sys.exit(0)
scale = _parse_val_or_vec(options.scale, 'scale', parser)
center = _parse_val_or_vec(options.center, 'center', parser)
filename_in = options.filename_in
filename_out = options.filename_out
if options.remesh:
import tempfile
import shlex
import subprocess
dirname = tempfile.mkdtemp()
is_surface = options.remesh.startswith('q')
if is_surface:
mesh = Mesh.from_file(filename_in)
domain = FEDomain(mesh.name, mesh)
region = domain.create_region('surf', 'vertices of surface',
'facet')
surf_mesh = Mesh.from_region(region, mesh,
localize=True, is_surface=True)
filename = op.join(dirname, 'surf.mesh')
surf_mesh.write(filename, io='auto')
else:
import shutil
shutil.copy(filename_in, dirname)
filename = op.join(dirname, op.basename(filename_in))
qopts = ''.join(options.remesh.split()) # Remove spaces.
command = 'tetgen -BFENkACp%s %s' % (qopts, filename)
args = shlex.split(command)
subprocess.call(args)
root, ext = op.splitext(filename)
mesh = Mesh.from_file(root + '.1.vtk')
remove_files(dirname)
else:
mesh = Mesh.from_file(filename_in)
if options.force_2d:
data = list(mesh._get_io_data())
data[0] = data[0][:, :2]
mesh = Mesh.from_data(mesh.name, *data)
if scale is not None:
if len(scale) == 1:
tr = nm.eye(mesh.dim, dtype=nm.float64) * scale
elif len(scale) == mesh.dim:
tr = nm.diag(scale)
else:
raise ValueError('bad scale! (%s)' % scale)
mesh.transform_coors(tr)
if center is not None:
cc = 0.5 * mesh.get_bounding_box().sum(0)
shift = center - cc
tr = nm.c_[nm.eye(mesh.dim, dtype=nm.float64), shift[:, None]]
mesh.transform_coors(tr)
if options.refine > 0:
domain = FEDomain(mesh.name, mesh)
output('initial mesh: %d nodes %d elements'
% (domain.shape.n_nod, domain.shape.n_el))
for ii in range(options.refine):
| output('refine %d...' % ii) | sfepy.base.base.output |
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