def create_beam(vol):
# build using MeshPy
from meshpy.tet import MeshInfo,build
mesh_info = MeshInfo()
mesh_info.set_points([
(0,0,0),
(0,1,0),
(0,1,1),
(0,0,1),
(5,0,0),
(5,1,0),
(5,1,1),
(5,0,1),
])
mesh_info.set_facets([
[0,1,2,3],
[4,5,6,7],
[0,1,5,4],
[1,2,6,5],
[0,3,7,4],
[3,2,6,7],
])
mesh = build(mesh_info,max_volume=vol)
return fmsh.MeshPyTet(mesh)
def main():
#Test1: mesh testing
MeshPoints = []
MeshFacets = []
with open('MeshFacets', 'rb') as input:
MeshFacets = pickle.load(input)
with open('MeshPoints', 'rb') as input:
MeshPoints = pickle.load(input)
mesh_info = MeshInfo()
mesh_info.regions.resize(1)
mesh_info.regions[0] = [
MeshPoints[0][0], MeshPoints[0][1], MeshPoints[0][2], # point in volume -> first box
0, # region tag (user-defined number)
1, # max tet volume in region
]
print "Building mesh from {} facets and {} points".format(len(MeshFacets), len(MeshPoints))
try:
mesh = build(mesh_info, options=Options(switches="pqT", epsilon=0.01), volume_constraints=True)
except:
pass
try:
mesh = build(mesh_info, options=Options(switches="pqT", epsilon=0.0001), volume_constraints=True)
except:
pass
print "Created mesh with {} points, {} faces and {} elements.".format(len(mesh.points), len(mesh.faces), len(mesh.elements))
def make_cylinder_mesh(radius=0.5, height=1, radial_subdivisions=10,
height_subdivisions=1, max_volume=None, periodic=False,
boundary_tagger=(lambda fvi, el, fn, all_v: [])):
from meshpy.tet import MeshInfo, build
from meshpy.geometry import make_cylinder
points, facets, facet_holestarts, facet_markers = \
make_cylinder(radius, height, radial_subdivisions,
height_subdivisions)
assert len(facets) == len(facet_markers)
if periodic:
return _make_z_periodic_mesh(
points, facets, facet_holestarts, facet_markers,
height=height,
max_volume=max_volume,
boundary_tagger=boundary_tagger)
else:
mesh_info = MeshInfo()
mesh_info.set_points(points)
mesh_info.set_facets_ex(facets, facet_holestarts, facet_markers)
generated_mesh = build(mesh_info, max_volume=max_volume)
from hedge.mesh import make_conformal_mesh_ext
from hedge.mesh.element import Tetrahedron
vertices = numpy.asarray(generated_mesh.points, dtype=float, order="C")
return make_conformal_mesh_ext(
vertices,
[Tetrahedron(i, el_idx, vertices)
for i, el_idx in enumerate(generated_mesh.elements)],
boundary_tagger)
def make_inverse_mesh_info(rz, radial_subdiv):
# chop off points with zero radius
while rz[0][0] == 0:
rz.pop(0)
while rz[-1][0] == 0:
rz.pop(-1)
# construct outer cylinder
((min_r, max_r), (min_z, max_z)) = bounding_box(rz)
if rz[0][1] < rz[-1][1]:
# built in positive z direction
rz.extend([
(max_r+2, max_z),
(max_r+2, min_z),
])
else:
rz.extend([
(max_r+2, min_z),
(max_r+2, max_z),
])
from meshpy.tet import MeshInfo
from meshpy.geometry import EXT_CLOSED_IN_RZ, \
generate_surface_of_revolution
points, facets, facet_holestarts, facet_markers = \
generate_surface_of_revolution(rz, closure=EXT_CLOSED_IN_RZ,
radial_subdiv=radial_subdiv)
mesh_info = MeshInfo()
mesh_info.set_points(points)
mesh_info.set_facets_ex(facets, facet_holestarts, facet_markers)
return mesh_info
def generate_Preview():
bpy.ops.object.mode_set(mode = 'OBJECT', toggle = False)
config = bpy.context.scene.CONFIG_MeshPy
vertList = []
faceList = []
meshPoints = []
meshFacets = []
split_faceList = []
split_vertList = []
ob = bpy.context.active_object
obname = ob.name
#compute mesh
compute_vertices(ob, meshPoints)
compute_polygones(ob, meshFacets)
if config.make_subdivision == False:
arg = "Y"
else:
arg = ""
mesh_info = MeshInfo()
mesh_info.set_points(meshPoints)
mesh_info.set_facets(meshFacets)
print(meshPoints)
print(meshFacets)
#args = ("pq" + str(config.ratio_quality) + "a" + str(config.ratio_maxsize) + str(arg))
'''
def mesh(self):
mesh_info = MeshInfo()
mesh_info.set_points(transpose([self.flat_x,self.flat_y,self.flat_z]))
mesh = build(mesh_info)
print 'yo'
for i, t in enumerate(mesh.elements):
print i, t
def main():
from math import pi, cos, sin
from meshpy.tet import MeshInfo, build
from meshpy.geometry import generate_surface_of_revolution,\
EXT_CLOSED_IN_RZ, GeometryBuilder
big_r = 3
little_r = 2.9
points = 50
dphi = 2*pi/points
rz = [(big_r+little_r*cos(i*dphi), little_r*sin(i*dphi))
for i in range(points)]
geob = GeometryBuilder()
geob.add_geometry(*generate_surface_of_revolution(rz,
closure=EXT_CLOSED_IN_RZ, radial_subdiv=20))
mesh_info = MeshInfo()
geob.set(mesh_info)
mesh_info.save_nodes("torus")
mesh_info.save_poly("torus")
mesh = build(mesh_info)
mesh.write_vtk("torus.vtk")
mesh.save_elements("torus_mesh")
mesh.save_nodes("torus_mesh")
mesh.write_neu(file("torus.neu", "w"),
{1: ("pec", 0)})
def test_tetgen():
from meshpy.tet import MeshInfo, build
mesh_info = MeshInfo()
mesh_info.set_points([
(0, 0, 0),
(2, 0, 0),
(2, 2, 0),
(0, 2, 0),
(0, 0, 12),
(2, 0, 12),
(2, 2, 12),
(0, 2, 12),
])
mesh_info.set_facets([
[0, 1, 2, 3],
[4, 5, 6, 7],
[0, 4, 5, 1],
[1, 5, 6, 2],
[2, 6, 7, 3],
[3, 7, 4, 0],
])
build(mesh_info)
def generateCubeMesh():
mesh_info = MeshInfo()
mesh_info.set_points([
(0, 0, 0), (1, 0, 0), (1, 1, 0), (0, 1, 0),
(0, 0, 1), (1, 0, 1), (1, 1, 1), (0, 1, 1),
])
mesh_info.set_facets([
[0, 1, 2, 3],
[4, 5, 6, 7],
[0, 4, 5, 1],
[1, 5, 6, 2],
[2, 6, 7, 3],
[3, 7, 4, 0],
])
mesh = build(mesh_info)
cellList = []
vertexList = []
mupifMesh = Mesh.UnstructuredMesh()
print("Mesh Points:")
for i, p in enumerate(mesh.points):
print(i, p)
vertexList.extend([Vertex.Vertex(i, i, p)])
print("Point numbers in tetrahedra:")
for i, t in enumerate(mesh.elements):
print(i, t)
cellList.extend([Cell.Tetrahedron_3d_lin(mupifMesh, i, i, t)])
mupifMesh.setup(vertexList, cellList)
return(mupifMesh)
def main():
mesh_info = MeshInfo()
mesh_info.set_points([
(0, 0, 0),
(2, 0, 0),
(2, 2, 0),
(0, 2, 0),
(0, 0, 12),
(2, 0, 12),
(2, 2, 12),
(0, 2, 12),
])
mesh_info.set_facets([
[0, 1, 2, 3],
[4, 5, 6, 7],
[0, 4, 5, 1],
[1, 5, 6, 2],
[2, 6, 7, 3],
[3, 7, 4, 0],
])
mesh_info.save_nodes("bar")
mesh_info.save_poly("bar")
mesh = build(mesh_info)
mesh.save_nodes("barout")
mesh.save_elements("barout")
mesh.save_faces("barout")
mesh.write_vtk("test.vtk")
def brep2lar(larBrep):
V,FV = larBrep
mesh_info = MeshInfo()
mesh_info.set_points(V)
mesh_info.set_facets(FV)
mesh = build(mesh_info)
W = [v for h,v in enumerate(mesh.points)]
CW = [tet for k,tet in enumerate(mesh.elements)]
FW = sorted(set(AA(tuple)(CAT(AA(faces)(CW)))))
EW = sorted(set(AA(tuple)(CAT(AA(edges)(FW)))))
return W,CW,FW,EW
def test_tetgen_points():
from meshpy.tet import MeshInfo, build, Options
import numpy as np
points = np.random.randn(10000, 3)
mesh_info = MeshInfo()
mesh_info.set_points(points)
options = Options("")
mesh = build(mesh_info, options=options)
print(len(mesh.points))
print(len(mesh.elements))
def make_mesh_info(rz, radial_subdiv):
from meshpy.tet import MeshInfo
from meshpy.geometry import EXT_OPEN, generate_surface_of_revolution
points, facets, facet_holestarts, facet_markers = \
generate_surface_of_revolution(rz, closure=EXT_OPEN,
radial_subdiv=radial_subdiv)
mesh_info = MeshInfo()
mesh_info.set_points(points)
mesh_info.set_facets_ex(facets, facet_holestarts, facet_markers)
return mesh_info
def _make_z_periodic_mesh(points, facets, facet_holestarts, facet_markers, height,
max_volume, boundary_tagger):
from meshpy.tet import MeshInfo, build
from meshpy.geometry import Marker
mesh_info = MeshInfo()
mesh_info.set_points(points)
mesh_info.set_facets_ex(facets, facet_holestarts, facet_markers)
mesh_info.pbc_groups.resize(1)
pbcg = mesh_info.pbc_groups[0]
pbcg.facet_marker_1 = Marker.MINUS_Z
pbcg.facet_marker_2 = Marker.PLUS_Z
pbcg.set_transform(translation=[0, 0, height])
def zper_boundary_tagger(fvi, el, fn, all_v):
# we only ask about *boundaries*
# we should not try to have the user tag
# the (periodicity-induced) interior faces
face_marker = fvi2fm[frozenset(fvi)]
if face_marker == Marker.MINUS_Z:
return ["minus_z"]
if face_marker == Marker.PLUS_Z:
return ["plus_z"]
result = boundary_tagger(fvi, el, fn, all_v)
if face_marker == Marker.SHELL:
result.append("shell")
return result
generated_mesh = build(mesh_info, max_volume=max_volume)
fvi2fm = generated_mesh.face_vertex_indices_to_face_marker
from hedge.mesh import make_conformal_mesh_ext
from hedge.mesh.element import Tetrahedron
vertices = numpy.asarray(generated_mesh.points, dtype=float, order="C")
return make_conformal_mesh_ext(
vertices,
[Tetrahedron(i, el_idx, vertices)
for i, el_idx in enumerate(generated_mesh.elements)],
zper_boundary_tagger,
periodicity=[None, None, ("minus_z", "plus_z")])
def main():
from ply import parse_ply
import sys
data = parse_ply(sys.argv[1])
from meshpy.geometry import GeometryBuilder
builder = GeometryBuilder()
builder.add_geometry(
points=[pt[:3] for pt in data["vertex"].data],
facets=[fd[0] for fd in data["face"].data])
builder.wrap_in_box(1)
from meshpy.tet import MeshInfo, build
mi = MeshInfo()
builder.set(mi)
mi.set_holes([builder.center()])
mesh = build(mi)
print("%d elements" % len(mesh.elements))
mesh.write_vtk("out.vtk")
def brep2lar(model,cycles,holes):
V,FV,EV = model
FE = crossRelation(V,FV,EV)
mesh_info = MeshInfo()
mesh_info.set_points(V)
mesh_info.set_facets_ex(cycles)
#mesh_info.set_holes(holes)
mesh = build(mesh_info,options=Options("pqYY"))
W = [v for h,v in enumerate(mesh.points)]
CW = [tet for k,tet in enumerate(mesh.elements)]
def simplify(fun):
def simplify0(simplices):
cellDict = defaultdict(tuple)
for cell in CAT(AA(fun)(simplices)):
cellDict[tuple(sorted(cell))] = tuple(cell)
return cellDict.values()
return simplify0
FW = sorted(simplify(faces)(CW))
EW = sorted(simplify(edges)(FW))
return W,CW,FW,EW
def main():
import numpy
from meshpy.tet import MeshInfo, build
from meshpy.geometry import GeometryBuilder, Marker, make_box
geob = GeometryBuilder()
box_marker = Marker.FIRST_USER_MARKER
extent_small = 0.3*numpy.ones(3, dtype=numpy.float64)
points, facets, _, _ = \
make_box(-extent_small, extent_small)
geob.add_geometry(points, facets, facet_markers=box_marker)
points, facets, _, facet_markers = \
make_box(numpy.array([-1, -1, -1]), numpy.array([1, 1, 5]))
geob.add_geometry(points, facets, facet_markers=facet_markers)
mesh_info = MeshInfo()
geob.set(mesh_info)
#mesh_info.set_holes([(0, 0, 0)])
# region attributes
mesh_info.regions.resize(1)
mesh_info.regions[0] = (
# point in region
[0, 0, 0] + [
# region number
1,
# max volume in region
0.001])
mesh = build(mesh_info, max_volume=0.06,
volume_constraints=True, attributes=True)
print(("%d elements" % len(mesh.elements)))
mesh.write_vtk("box-in-box.vtk")
def make_mesh_info_with_inner_tube(rz, tube_r, radial_subdiv,
max_inner_volume=1e-4):
# chop off points with zero radius
while rz[0][0] == 0:
rz.pop(0)
while rz[-1][0] == 0:
rz.pop(-1)
# construct outer cylinder
first_z = rz[0][1]
last_z = rz[-1][1]
rz.insert(0, (tube_r, first_z))
rz.append((tube_r, last_z))
from meshpy.tet import MeshInfo
from meshpy.geometry import EXT_OPEN, generate_surface_of_revolution
outer_points, outer_facets, outer_facet_holestarts, outer_facet_markers = \
generate_surface_of_revolution(rz,
closure=EXT_OPEN, radial_subdiv=radial_subdiv)
outer_point_indices = tuple(range(len(outer_points)))
inner_points, inner_facets, inner_facet_holestarts, inner_facet_markers = \
generate_surface_of_revolution(
[(0,first_z),
(tube_r, first_z),
(tube_r, last_z),
(0, last_z)],
point_idx_offset=len(outer_points),
radial_subdiv=radial_subdiv,
ring_point_indices=[
None,
outer_point_indices[:radial_subdiv],
outer_point_indices[-radial_subdiv:],
None,
]
)
points = outer_points + inner_points
facets = outer_facets + inner_facets
facet_holestarts = outer_facet_holestarts + inner_facet_holestarts
facet_markers = outer_facet_markers + inner_facet_markers
mesh_info = MeshInfo()
mesh_info.set_points(points)
mesh_info.set_facets_ex(facets, facet_holestarts, facet_markers)
# set regional max. volume
mesh_info.regions.resize(1)
mesh_info.regions[0] = [0, 0,(first_z+last_z)/2, 0,
max_inner_volume]
return mesh_info
def test_torus():
from math import pi, cos, sin
from meshpy.tet import MeshInfo, build
from meshpy.geometry import generate_surface_of_revolution, \
EXT_CLOSED_IN_RZ, GeometryBuilder
big_r = 3
little_r = 2.9
points = 50
dphi = 2 * pi / points
rz = [(big_r + little_r * cos(i * dphi), little_r * sin(i * dphi))
for i in range(points)]
geob = GeometryBuilder()
geob.add_geometry(*generate_surface_of_revolution(
rz, closure=EXT_CLOSED_IN_RZ, radial_subdiv=20))
mesh_info = MeshInfo()
geob.set(mesh_info)
build(mesh_info)
def create_ball_mesh(num_longi_points=10):
radius = 5.0
radial_subdiv = 2 * num_longi_points
dphi = np.pi / num_longi_points
# Make sure the nodes meet at the poles of the ball.
def truncate(r):
if abs(r) < 1e-10:
return 0
else:
return r
# Compute the volume of a canonical tetrahedron
# with edgelength radius*dphi.
a = radius * dphi
canonical_tet_volume = np.sqrt(2.0) / 12 * a ** 3
# Build outline for surface of revolution.
rz = [
(truncate(radius * np.sin(i * dphi)), radius * np.cos(i * dphi))
for i in range(num_longi_points + 1)
]
geob = GeometryBuilder()
geob.add_geometry(
*generate_surface_of_revolution(
rz, closure=EXT_OPEN, radial_subdiv=radial_subdiv
)
)
mesh_info = MeshInfo()
geob.set(mesh_info)
meshpy_mesh = build(mesh_info, max_volume=canonical_tet_volume)
return np.array(meshpy_mesh.points), np.array(meshpy_mesh.elements)
def generateCubeMesh():
mesh_info = MeshInfo()
mesh_info.set_points([
(0, 0, 0),
(1, 0, 0),
(1, 1, 0),
(0, 1, 0),
(0, 0, 1),
(1, 0, 1),
(1, 1, 1),
(0, 1, 1),
])
mesh_info.set_facets([
[0, 1, 2, 3],
[4, 5, 6, 7],
[0, 4, 5, 1],
[1, 5, 6, 2],
[2, 6, 7, 3],
[3, 7, 4, 0],
])
mesh = build(mesh_info)
cellList = []
vertexList = []
mupifMesh = Mesh.UnstructuredMesh()
print("Mesh Points:")
for i, p in enumerate(mesh.points):
print(i, p)
vertexList.extend([Vertex.Vertex(i, i, p)])
print("Point numbers in tetrahedra:")
for i, t in enumerate(mesh.elements):
print(i, t)
cellList.extend([Cell.Tetrahedron_3d_lin(mupifMesh, i, i, t)])
mupifMesh.setup(vertexList, cellList)
return (mupifMesh)
def make_ball_mesh(r=0.5, subdivisions=10, max_volume=None,
boundary_tagger=(lambda fvi, el, fn, all_v: [])):
from meshpy.tet import MeshInfo, build
from meshpy.geometry import make_ball
points, facets, facet_holestarts, facet_markers = \
make_ball(r, subdivisions)
mesh_info = MeshInfo()
mesh_info.set_points(points)
mesh_info.set_facets_ex(facets, facet_holestarts, facet_markers)
generated_mesh = build(mesh_info, max_volume=max_volume)
vertices = numpy.asarray(generated_mesh.points, dtype=float, order="C")
from hedge.mesh.element import Tetrahedron
from hedge.mesh import make_conformal_mesh_ext
return make_conformal_mesh_ext(
vertices,
[Tetrahedron(i, el_idx, vertices)
for i, el_idx in enumerate(generated_mesh.elements)],
boundary_tagger)
def brep2lar(model, cycles, holes):
V, FV, EV = model
FE = crossRelation(V, FV, EV)
mesh_info = MeshInfo()
mesh_info.set_points(V)
mesh_info.set_facets_ex(cycles)
#mesh_info.set_holes(holes)
mesh = build(mesh_info, options=Options("pqYY"))
W = [v for h, v in enumerate(mesh.points)]
CW = [tet for k, tet in enumerate(mesh.elements)]
def simplify(fun):
def simplify0(simplices):
cellDict = defaultdict(tuple)
for cell in CAT(AA(fun)(simplices)):
cellDict[tuple(sorted(cell))] = tuple(cell)
return cellDict.values()
return simplify0
FW = sorted(simplify(faces)(CW))
EW = sorted(simplify(edges)(FW))
return W, CW, FW, EW
def make_tetgen_mesh(vert_list, face_list):
# Make the tetgen mesh
mesh_info = MeshInfo()
# Points
mesh_info.set_points(vert_list)
# Faces
mesh_info.set_facets(face_list)
# --- TEMP ---
'''
# Make an object from the surface we are planning to tetrahedronalize
mesh_new = bpy.data.meshes.new("pre_tet_mesh")
mesh_new.from_pydata(vert_list,[],face_list)
mesh_new.validate(verbose=False) # Important! and i dont know why
mesh_new.update()
obj_new = bpy.data.objects.new("pre_tet",mesh_new)
context.scene.objects.link(obj_new)
# return
'''
# --- FIN TEMP ---
# Tetrahedralize
# Options:
# neighout = Write out neighbors
# facesout = Write out faces
# edgesout = Write out edges
# regionattrib = Write out element_attributes = unique id for every tet in a distinct volume
# nobisect = Dont alter surface
print("> Starting TetGen")
opts = Options(switches='pq', neighout = True, facesout = True, edgesout = True, regionattrib = True, verbose = True, docheck = True)
mesh_built = build(mesh_info, options=opts)
print("> Finished TetGen successfully")
return mesh_built
def unstructure_mesh(h):
mesh_info = MeshInfo()
# Set the vertices of the domain [0, 1]^3
mesh_info.set_points([
(0,0,0), (1,0,0), (1,1,0), (0,1,0),
(0,0,1), (1,0,1), (1,1,1), (0,1,1),
])
# Set the facets of the domain [0, 1]^3
mesh_info.set_facets([
[0,1,2,3],
[4,5,6,7],
[0,4,5,1],
[1,5,6,2],
[2,6,7,3],
[3,7,4,0],
])
# Generate the tet mesh
mesh = build(mesh_info, max_volume=(h)**3)
point = np.array(mesh.points, dtype=np.float)
cell = np.array(mesh.elements, dtype=np.int)
return TetrahedronMesh(point, cell)
#============================================================
#- Triangulation.
#============================================================
for i in range(0, m.shape[0]):
S = m[i, :]
outfile = outfilename + '.' + str(i) + '.vtk'
print('Compute Delauney triangulation ...')
x = 6371.0 * np.cos(lat * np.pi / 180.0) * np.cos(lon * np.pi / 180.0)
y = 6371.0 * np.cos(lat * np.pi / 180.0) * np.sin(lon * np.pi / 180.0)
z = 6371.0 * np.sin(lat * np.pi / 180.0)
pts = np.array((x, y, z)).T
mesh_info = MeshInfo()
mesh_info.set_points(pts)
opts = Options("Q")
mesh = build(mesh_info, options=opts)
elements = mesh.elements
#============================================================
#- Write vtk file.
#============================================================
print('Write vtk file ...')
vtkElements = pyvtk.VtkData(pyvtk.UnstructuredGrid(pts, tetra=elements),
PointData(Scalars(S, 'grad_PSD_ZZ')), "Mesh")
vtkElements.tofile(outfile)
from meshpy.tet import MeshInfo, build
mesh_info = MeshInfo()
# construct a two-box extrusion of this base
base = [(-2,-2,0), (2,-2,0), (2,2,0), (-2,2,0)]
# first, the nodes
mesh_info.set_points(
base
+[(x,y,z+5) for x,y,z in base]
+[(x,y,z+10) for x,y,z in base]
)
# next, the facets
# vertex indices for a box missing the -z face
box_without_minus_z = [
[4,5,6,7],
[0,4,5,1],
[1,5,6,2],
[2,6,7,3],
[3,7,4,0],
]
def add_to_all_vertex_indices(facets, increment):
return [[pt+increment for pt in facet] for facet in facets]
mesh_info.set_facets(
[[0,1,2,3]] # base
+box_without_minus_z # first box
def main():
import numpy
# from math import pi, cos, sin
from meshpy.tet import MeshInfo, build
from meshpy.geometry import GeometryBuilder, Marker, generate_extrusion, make_box
from meshpy.naca import get_naca_points
geob = GeometryBuilder()
box_marker = Marker.FIRST_USER_MARKER
wing_length = 2
wing_subdiv = 5
rz_points = ([
(0, -wing_length * 1.05),
(0.7, -wing_length * 1.05),
] + [(r, x) for x, r in zip(
numpy.linspace(-wing_length, 0, wing_subdiv, endpoint=False),
numpy.linspace(0.8, 1, wing_subdiv, endpoint=False),
)] + [(1, 0)] + [(r, x) for x, r in zip(
numpy.linspace(wing_length, 0, wing_subdiv, endpoint=False),
numpy.linspace(0.8, 1, wing_subdiv, endpoint=False),
)][::-1] + [(0.7, wing_length * 1.05), (0, wing_length * 1.05)])
geob.add_geometry(*generate_extrusion(
rz_points=rz_points,
base_shape=get_naca_points("0012", verbose=False, number_of_points=20),
ring_markers=(wing_subdiv * 2 + 4) * [box_marker],
))
from meshpy.tools import make_swizzle_matrix
swizzle_matrix = make_swizzle_matrix("z:x,y:y,x:z")
geob.apply_transform(lambda p: numpy.dot(swizzle_matrix, p))
def deform_wing(p):
x, y, z = p
return numpy.array([
x,
y + 0.1 * abs(x / wing_length)**2,
z + 0.8 * abs(x / wing_length)**1.2,
])
geob.apply_transform(deform_wing)
points, facets, _, facet_markers = make_box(
numpy.array([-wing_length - 1, -1, -1.5]),
numpy.array([wing_length + 1, 1, 3]))
geob.add_geometry(points, facets, facet_markers=facet_markers)
mesh_info = MeshInfo()
geob.set(mesh_info)
mesh_info.set_holes([(0, 0, 0.5)])
mesh = build(mesh_info)
print("%d elements" % len(mesh.elements))
mesh.write_vtk("airfoil3d.vtk")
def make_boxmesh():
from meshpy.tet import MeshInfo, build
from meshpy.geometry import GeometryBuilder, Marker, make_box
geob = GeometryBuilder()
box_marker = Marker.FIRST_USER_MARKER
extent_small = 0.1 * numpy.ones(3, dtype=numpy.float64)
geob.add_geometry(*make_box(-extent_small, extent_small))
# make small "separator box" for region attribute
geob.add_geometry(
*make_box(-extent_small *
4, numpy.array([4, 0.4, 0.4], dtype=numpy.float64)))
geob.add_geometry(*make_box(numpy.array([-1, -1, -1], dtype=numpy.float64),
numpy.array([5, 1, 1], dtype=numpy.float64)))
mesh_info = MeshInfo()
geob.set(mesh_info)
mesh_info.set_holes([(0, 0, 0)])
# region attributes
mesh_info.regions.resize(1)
mesh_info.regions[0] = (
# point in region
list(extent_small * 2) + [
# region number
1,
# max volume in region
#0.0001
0.005
])
mesh = build(mesh_info,
max_volume=0.02,
volume_constraints=True,
attributes=True)
print("%d elements" % len(mesh.elements))
#mesh.write_vtk("box-in-box.vtk")
#print "done writing"
fvi2fm = mesh.face_vertex_indices_to_face_marker
face_marker_to_tag = {
box_marker: "noslip",
Marker.MINUS_X: "inflow",
Marker.PLUS_X: "outflow",
Marker.MINUS_Y: "inflow",
Marker.PLUS_Y: "inflow",
Marker.PLUS_Z: "inflow",
Marker.MINUS_Z: "inflow"
}
def bdry_tagger(fvi, el, fn, all_v):
face_marker = fvi2fm[fvi]
return [face_marker_to_tag[face_marker]]
from grudge.mesh import make_conformal_mesh
return make_conformal_mesh(mesh.points, mesh.elements, bdry_tagger)
def main():
import numpy
#from math import pi, cos, sin
from meshpy.tet import MeshInfo, build
from meshpy.geometry import GeometryBuilder, Marker, \
generate_extrusion, make_box
from meshpy.naca import get_naca_points
geob = GeometryBuilder()
box_marker = Marker.FIRST_USER_MARKER
wing_length = 2
wing_subdiv = 5
rz_points = [
(0, -wing_length*1.05),
(0.7, -wing_length*1.05),
] + [
(r, x) for x, r in zip(
numpy.linspace(-wing_length, 0, wing_subdiv, endpoint=False),
numpy.linspace(0.8, 1, wing_subdiv, endpoint=False))
] + [(1, 0)] + [
(r, x) for x, r in zip(
numpy.linspace(wing_length, 0, wing_subdiv, endpoint=False),
numpy.linspace(0.8, 1, wing_subdiv, endpoint=False))
][::-1] + [
(0.7, wing_length*1.05),
(0, wing_length*1.05)
]
geob.add_geometry(*generate_extrusion(
rz_points=rz_points,
base_shape=get_naca_points("0012", verbose=False, number_of_points=20),
ring_markers=(wing_subdiv*2+4)*[box_marker]))
from meshpy.tools import make_swizzle_matrix
swizzle_matrix = make_swizzle_matrix("z:x,y:y,x:z")
geob.apply_transform(lambda p: numpy.dot(swizzle_matrix, p))
def deform_wing(p):
x, y, z = p
return numpy.array([
x,
y + 0.1*abs(x/wing_length)**2,
z + 0.8*abs(x/wing_length) ** 1.2])
geob.apply_transform(deform_wing)
points, facets, _, facet_markers = make_box(
numpy.array([-wing_length-1, -1, -1.5]),
numpy.array([wing_length+1, 1, 3]))
geob.add_geometry(points, facets, facet_markers=facet_markers)
mesh_info = MeshInfo()
geob.set(mesh_info)
mesh_info.set_holes([(0, 0, 0.5)])
mesh = build(mesh_info)
print("%d elements" % len(mesh.elements))
mesh.write_vtk("airfoil3d.vtk")
def ProcessGlobalAction(ActionType, GlobalAction, NumberedPoints, Elements, Points):
ExtendedData = {'ElementPropertyIndex' : {}}
if ActionType == 'SpecialEntities':
Filters = json.loads(GlobalAction['Filters'])
if not 'SpecialEntities' in ExtendedData:
ExtendedData['SpecialEntities'] = []
for Element in Elements:
if Element and Element['filter'] in Filters:
ExtendedData['SpecialEntities'].append(Element)
return ExtendedData, False
if ActionType == 'Nonlinear':
Output = {}
#for key in GlobalAction:
# if 'ElementPropertyMaxIndex' in ExtendedData:
# ExtendedData['ElementPropertyMaxIndex'] += 1
# else:
# ExtendedData['ElementPropertyMaxIndex'] = 1
# propertyindex = ExtendedData['ElementPropertyMaxIndex']
# ExtendedData['ElementPropertyIndex'][key] = propertyindex
# ExtendedData['NonlinearPropertyIndex'][key] = nonlinearindex
#
#
# ExtendedData['ElementPropertyIndex'][key] = workingindex #In this same notation we can get the index when writing elements
# Output[index] = ""
return ExtendedData, Output #Here we have Output ready to be printed and ExtendedData, a mapper to Output
if ActionType == 'ElementProperties':
Output = {}
for key in GlobalAction:
if 'ElementPropertyMaxIndex' in ExtendedData:
ExtendedData['ElementPropertyMaxIndex'] += 1
else:
ExtendedData['ElementPropertyMaxIndex'] = 1
workingindex = ExtendedData['ElementPropertyMaxIndex']
ExtendedData['ElementPropertyIndex'][key] = workingindex #In this same notation we can get the index when writing elements
Output[workingindex] = GlobalAction[key]
return ExtendedData, Output #Here we have Output ready to be printed and ExtendedData, a mapper to Output
if ActionType == 'Orphans':
Output = []
for Number, Point in NumberedPoints['points'].iteritems():
ElementAmount = len(Point['elementnumbers'])
if ElementAmount < 2:
print "Orphan node {}!".format(Number)
Output.append({'element_type': 'POINT', 'position': Point['point'], 'layer': 'Errors', 'nodenumber': Number})
return {'information':'addObjects'}, Output#Here we have Output ready to be printed and ExtendedData, a mapper to Output
if ActionType == 'Meshing':
EntityModelData = json.loads(GlobalAction['EntityModelData']) if 'EntityModelData' in GlobalAction else {}
ExtendedModelData = json.loads(GlobalAction['ExtendedModelData']) if 'ExtendedModelData' in GlobalAction else {}
Semantic = json.loads(GlobalAction['Semantic']) if 'Semantic' in GlobalAction else {}
if 'exclude filters' in Semantic:
if not 'ExcludeFilters' in ExtendedData: ExtendedData['ExcludeFilters'] = []
ExtendedData['ExcludeFilters'] = ExtendedData['ExcludeFilters'] + Semantic['exclude filters']
Boundaries = []
Output = []
Geometry = json.loads(GlobalAction['Geometry']) if 'Geometry' in GlobalAction else {}
Parameters = json.loads(GlobalAction['Parameters']) if 'Parameters' in GlobalAction else {}
AdditionalPointsFilters = Geometry['points'] if 'points' in Geometry else []
for Filter in Geometry['boundaries']:
print "Using filter {} as finite element domain boundary.".format(Filter)
for Element in Elements:
if Element and Element['filter'] == Filter and Element['elementclass'] in ['FACE_3NODES', 'FACE_4NODES', 'POLYLINE', 'PLINE_5NODES']:
Boundaries.append(Element)
AdditionalPoints = []
for Filter in AdditionalPointsFilters:
print "Using filter {} as additional points container.".format(Filter)
for Element in Elements:
if Element and Element['filter'] == Filter and Element['elementclass'] in ['FACE_3NODES', 'FACE_4NODES', 'POLYLINE', 'LINE_2NODES']:
AdditionalPoints.extend(
Element['points']
)
print "Assembling FE domain"
mesh_info = MeshInfo()
#additional_points = MeshInfo()
#additional_points.set_points(list(set(AdditionalPoints)))
MeshPoints = []
MeshFacets = []
MeshPointsIndex = {}
PointIndex = 0
for BoundaryElement in Boundaries:
ElementPoints = BoundaryElement['points']
MeshFacet = []
if Parameters['type'] == 'divide_4p_faces':
for point in [ElementPoints[0],ElementPoints[1],ElementPoints[2]]:
if not point in MeshPointsIndex:
MeshPointsIndex[point] = PointIndex
MeshPoints.append(False)
MeshPoints[PointIndex] = NumberedPoints['points'][point]['point']
PointIndex += 1
MeshFacet.append(MeshPointsIndex[point])
MeshFacets.append(MeshFacet)
MeshFacet = []
if ElementPoints[2] != ElementPoints[3]:
for point in [ElementPoints[0],ElementPoints[2],ElementPoints[3]]:
if not point in MeshPointsIndex:
MeshPointsIndex[point] = PointIndex
MeshPoints.append(False)
MeshPoints[PointIndex] = NumberedPoints['points'][point]['point']
PointIndex += 1
MeshFacet.append(MeshPointsIndex[point])
MeshFacets.append(MeshFacet)
else:
for point in ElementPoints:
if not point in MeshPointsIndex:
MeshPointsIndex[point] = PointIndex
MeshPoints.append(False)
MeshPoints[PointIndex] = NumberedPoints['points'][point]['point']
PointIndex += 1
if not MeshPointsIndex[point] in MeshFacet:
MeshFacet.append(MeshPointsIndex[point])
else:
print "Mesh error or 3-point 3DFACE."
MeshFacets.append(MeshFacet)
MeshFacet = []
for point in list(set(AdditionalPoints)):
if not point in MeshPointsIndex: #See whether the point is already indexed by its native number
MeshPointsIndex[point] = PointIndex
MeshPoints.append(False)
MeshPoints[PointIndex] = NumberedPoints['points'][point]['point']
PointIndex += 1
saveobject(MeshFacets, r'MeshFacets')
saveobject(MeshPoints, r'MeshPoints')
mesh_info.set_facets(MeshFacets)
mesh_info.set_points(MeshPoints)
#insertaddpoints
#points = np.array([list(x) for x in MeshPoints])
#qhull = scipy.spatial.Delaunay(points)
#mesh_info.Options(switches='pq')
#mesh_info.set_points([
# (0,0,0), (12,0,0), (12,12,0), (0,12,0),
# (0,0,12), (12,0,12), (12,12,12), (0,12,12),
# ])
#mesh_info.set_facets([
# [0,1,2,3],
# [4,5,6,7],
# [0,4,5,1],
# [1,5,6,2],
# [2,6,7,3],
# [3,7,4,0],
# ])
#opts = Options(switches='pq')
#opts.maxvolume = 0.0001
#opts.parse_switches()
mesh_info.regions.resize(1)
mesh_info.regions[0] = [
MeshPoints[0][0], MeshPoints[0][1], MeshPoints[0][2], # point in volume -> first box
0, # region tag (user-defined number)
Parameters['maxvolume'], # max tet volume in region
]
mesh = build(mesh_info, options=Options(switches="pqT", epsilon=Parameters['tolerance']), volume_constraints=True)
print "Created mesh with {} points, {} faces and {} elements.".format(len(mesh.points), len(mesh.faces), len(mesh.elements))
#mesh = build(mesh_info, options=Options(switches="pTi", epsilon=Parameters['tolerance'], insertaddpoints=True), volume_constraints=True, insert_points=additional_points)
#mesh.write_vtk("test.vtk")
#mesh.points
#mesh.elements
#mesh.faces
filename = "test"
#mesh.save_elements(filename)
#mesh.save_nodes(filename)
#mesh.save_elements(filename)
#mesh.save_faces(filename)
#mesh.save_edges(filename)
#mesh.save_neighbors(filename)
#mesh.save_poly(filename)
#for element in qhull.simplices:
# Position = [list(qhull.points[x]) for x in element]
# Output.append({'element_type': '3DFACE', 'position': Position, 'layer': 'Elements'})
#NumberedPoints['points'][compoundObject['points'][0]]['point']
if not Boundaries: return False, False
Precision = int(GlobalAction['Precision']) if 'Precision' in GlobalAction else 4
if Semantic['output'].lower() == 'graphics':
for face in mesh.faces:
Position = [mesh.points[x] for x in face]
Output.append({'element_type': '3DFACE', 'position': Position, 'layer': 'Faces'})
for element in mesh.elements:
Position = [mesh.points[x] for x in element]
Output.append({'element_type': '3DFACE', 'position': Position, 'layer': 'Elements'})
return {'information':'addObjects'}, Output
elif Semantic['output'].lower() == 'fea':
Points = {}
for NumberedPoint in NumberedPoints['points']:
Points[NumberedPoints['points'][NumberedPoint]['point']] = NumberedPoint
NodeNumber = NumberedPoints['maximumNode']
for element in mesh.elements:
Position = [mesh.points[x] for x in element]
for i, point in enumerate(Position):
Position[i] = [round(x, Precision) for x in point]
#else:
# if tuple([round(x, PrepPrecision) for x in Coords]) in [(4.95,-17.69,58.9), (4.96,-17.69,58.9)]:
# pass
# object['points'][i] = tuple([round(x, PrepPrecision) for x in Coords])
# if not object['points'][i] in GlobalPointIndex:
# GlobalPointIndex.append(object['points'][i])
ElementPoints = []
ElementNumber = len(Elements)
for point in Position:
#Update NumberedPoints and construct all necessary data for Elements
point = NeighborhoodRaw(tuple(point), Precision, Points)
if not tuple(point) in Points:
NodeNumber += 1
Points[tuple(point)] = NodeNumber
#PointsNumbered.append(None)
NumberedPoints['points'][NodeNumber] = {'point': tuple(point), 'elementnumbers': []}
NumberedPoints['maximumNode'] = NodeNumber
CurrentPointNumber = Points[tuple(point)]
ElementPoints.append(CurrentPointNumber)
NumberedPoints['points'][CurrentPointNumber]['elementnumbers'].append(ElementNumber)
#Update Points if possible
#Update Elements
Element = { 'points' : ElementPoints,
'elementclass' : 'SOLID_4NODES',
'elementnum': ElementNumber, #???
'filter': Semantic['filter'],
'entity_model_data': EntityModelData,
'extended_model_data': ExtendedModelData,
'generation_order': None,
}
Elements.append(None)
Elements[ElementNumber] = Element
return ExtendedData, False
if ActionType == 'AddShells':
ExtendedData = {}
EntityModelData = json.loads(GlobalAction['EntityModelData']) if 'EntityModelData' in GlobalAction else {}
ExtendedModelData = json.loads(GlobalAction['ExtendedModelData']) if 'ExtendedModelData' in GlobalAction else {}
Filters = json.loads(GlobalAction['Filters']) if 'Filters' in GlobalAction else {}
for Element in Elements:
if not Element or not Element['filter'] in Filters: continue
if Element['generation_order'] == 0 and Element['entity_model_data']['layer'] != "Concrete bases crown":
ElementPoints = [Element['points'][0], Element['points'][1], Element['points'][2]]
ElementNumber = len(Elements)
NewElement = { 'points' : ElementPoints,
'elementclass' : 'FACE_3NODES',
'elementnum': ElementNumber, #???
'filter': GlobalAction['AssignedFilter'],
'entity_model_data': EntityModelData,
'extended_model_data': ExtendedModelData,
'generation_order': None,
}
Elements.append(None)
Elements[ElementNumber] = NewElement
if Element['elementclass'] == 'SOLID_8NODES':
ElementPoints = [Element['points'][0], Element['points'][2], Element['points'][3]]
ElementNumber = len(Elements)
NewElement = { 'points' : ElementPoints,
'elementclass' : 'FACE_3NODES',
'elementnum': ElementNumber, #???
'filter': GlobalAction['AssignedFilter'],
'entity_model_data': EntityModelData,
'extended_model_data': ExtendedModelData,
'generation_order': None,
}
Elements.append(None)
Elements[ElementNumber] = NewElement
if Element['elementclass'] == 'SOLID_10NODES':
pass
pass
return {}, {}
return False
# figure()
n, bins, patches = hist(vols, 50, facecolor='green')
xlabel('Volume')
ylabel('Number')
show()
# close()
def volTet2(vertPoints):
return abs(dot((vertPoints[0]-vertPoints[3]),cross((vertPoints[1]-vertPoints[3]),(vertPoints[2]-vertPoints[3])))/6.0)
# mainDir = '/home/hessb/Downloads/temp'
mainDir = '/fslhome/bch/trash'
os.chdir(mainDir)
mesh_info = MeshInfo()
# Cubic IBZ
# mesh_info.set_points([
# (0,0,0), (0.5,0.5,0), (0,0.5,0), (0.5,0.5,0.5)
# ])
# mesh_info.set_facets([
# [0,1,2],
# [0,1,3],
# [1,2,3],
# [3,2,0]
# ])
#Cubic entire cubic voronoi cell....
a = 0.5; b = -0.5
mesh_info.set_points([
(b,b,b), (b,b,a), (b,a,a),(b,a,b),(a,b,b), (a,b,a), (a,a,a),(a,a,b)
def generateConeMesh(plot=True):
x0 = 0
y0 = 0
z0 = 1
h = 1
r_bottom = 1.3
r_top = 1.5
r_scale = r_top / r_bottom
rz = [(0, z0), (1, z0), (r_scale, z0 + h), (0, z0 + h)]
base = []
# Create circle
for theta in np.linspace(0, 2 * np.pi, 40):
x = r_bottom * np.sin(theta)
y = r_bottom * np.cos(theta)
base.extend([(x, y)])
(points, facets, facet_holestarts,
markers) = generate_extrusion(rz_points=rz, base_shape=base)
if plot:
p_array = np.array(points)
xs = p_array[:, 0] + x0
ys = p_array[:, 1] + y0
zs = p_array[:, 2]
fig = plt.figure()
ax = fig.add_subplot(111, projection='3d')
ax.scatter(xs, ys, zs)
for f in facets:
plt.plot(xs[list(f[0])], ys[list(f[0])], zs[list(f[0])])
if True:
axLim = ax.get_w_lims()
MAX = np.max(axLim)
for direction in (-1, 1):
for point in np.diag(direction * MAX * np.array([1, 1, 1])):
ax.plot([point[0]], [point[1]], [np.abs(point[2])], 'w')
x = [0, 0]
y = [0, 0]
z = [1, 1 + 0.2]
plt.plot(x, y, z)
plt.show()
mesh_info = MeshInfo()
mesh_info.set_points(points)
mesh_info.set_facets_ex(facets)
mesh = build(mesh_info)
# print(mesh.elements)
cellList = []
vertexList = []
mupifMesh = Mesh.UnstructuredMesh()
for i, p in enumerate(mesh.points):
p = (p[0] + x0, p[1] + y0, p[2])
vertexList.extend([Vertex.Vertex(i, i, p)])
for i, t in enumerate(mesh.elements):
cellList.extend([Cell.Tetrahedron_3d_lin(mupifMesh, i, i, t)])
mupifMesh.setup(vertexList, cellList)
return (mupifMesh)
from meshpy.tet import MeshInfo, build
mesh_info = MeshInfo()
mesh_info.set_points([
(0,0,0), (2,0,0), (2,2,0), (0,2,0),
(0,0,12), (2,0,12), (2,2,12), (0,2,12),
])
mesh_info.set_facets([
[0,1,2,3],
[4,5,6,7],
[0,4,5,1],
[1,5,6,2],
[2,6,7,3],
[3,7,4,0],
])
mesh = build(mesh_info)
print "Mesh Points:"
for i, p in enumerate(mesh.points):
print i, p
print "Point numbers in tetrahedra:"
for i, t in enumerate(mesh.elements):
print i, t
mesh.write_vtk("test.vtk")
def make_boxmesh():
from meshpy.tet import MeshInfo, build
from meshpy.geometry import GeometryBuilder, Marker, make_box
geob = GeometryBuilder()
box_marker = Marker.FIRST_USER_MARKER
extent_small = 0.1*numpy.ones(3, dtype=numpy.float64)
geob.add_geometry(*make_box(-extent_small, extent_small))
# make small "separator box" for region attribute
geob.add_geometry(
*make_box(
-extent_small*4,
numpy.array([4, 0.4, 0.4], dtype=numpy.float64)))
geob.add_geometry(
*make_box(
numpy.array([-1, -1, -1], dtype=numpy.float64),
numpy.array([5, 1, 1], dtype=numpy.float64)))
mesh_info = MeshInfo()
geob.set(mesh_info)
mesh_info.set_holes([(0, 0, 0)])
# region attributes
mesh_info.regions.resize(1)
mesh_info.regions[0] = (
# point in region
list(extent_small*2) + [
# region number
1,
# max volume in region
#0.0001
0.005
])
mesh = build(mesh_info, max_volume=0.02,
volume_constraints=True, attributes=True)
print "%d elements" % len(mesh.elements)
#mesh.write_vtk("box-in-box.vtk")
#print "done writing"
fvi2fm = mesh.face_vertex_indices_to_face_marker
face_marker_to_tag = {
box_marker: "noslip",
Marker.MINUS_X: "inflow",
Marker.PLUS_X: "outflow",
Marker.MINUS_Y: "inflow",
Marker.PLUS_Y: "inflow",
Marker.PLUS_Z: "inflow",
Marker.MINUS_Z: "inflow"
}
def bdry_tagger(fvi, el, fn, all_v):
face_marker = fvi2fm[fvi]
return [face_marker_to_tag[face_marker]]
from hedge.mesh import make_conformal_mesh
return make_conformal_mesh(
mesh.points, mesh.elements, bdry_tagger)
def make_extrusion_with_fine_core(rz,
inner_r,
max_volume_inner=1e-4,
max_volume_outer=5e-2,
radial_subdiv=20):
min_z = min(rz_pt[1] for rz_pt in rz)
max_z = max(rz_pt[1] for rz_pt in rz)
from meshpy.tet import MeshInfo, build
from meshpy.geometry import generate_surface_of_revolution
MINUS_Z_MARKER = 1
PLUS_Z_MARKER = 2
inner_points, inner_facets, inner_holes, inner_markers = \
generate_surface_of_revolution(
[
(0, min_z),
(inner_r, min_z),
(inner_r, max_z),
(0, max_z),
],
ring_markers=[
MINUS_Z_MARKER,
0,
PLUS_Z_MARKER
],
radial_subdiv=radial_subdiv,
)
inner_point_indices = tuple(range(len(inner_points)))
outer_points, outer_facets, outer_holes, outer_markers = \
generate_surface_of_revolution(
[(inner_r,min_z)] + rz + [(inner_r, max_z)],
ring_markers=[MINUS_Z_MARKER] + [0]*(len(rz)-1) + [PLUS_Z_MARKER],
point_idx_offset=len(inner_points),
radial_subdiv=radial_subdiv,
ring_point_indices=
[ inner_point_indices[:radial_subdiv] ]
+ [None]*len(rz)
+ [inner_point_indices[radial_subdiv:]]
)
mesh_info = MeshInfo()
mesh_info.set_points(inner_points + outer_points)
mesh_info.set_facets_ex(
inner_facets + outer_facets,
inner_holes + outer_holes,
inner_markers + outer_markers,
)
# set regional max. volume
mesh_info.regions.resize(2)
mesh_info.regions[0] = [0, 0, (max_z + min_z) / 2, 0, max_volume_inner]
mesh_info.regions[1] = [
inner_r + (rz[0][0] - inner_r) / 2, 0, (max_z + min_z) / 2, 0,
max_volume_outer
]
# add periodicity
mesh_info.pbc_groups.resize(1)
pbcg = mesh_info.pbc_groups[0]
pbcg.facet_marker_1 = MINUS_Z_MARKER
pbcg.facet_marker_2 = PLUS_Z_MARKER
pbcg.set_transform(translation=[0, 0, max_z - min_z])
mesh = build(mesh_info, verbose=True, volume_constraints=True)
#print "%d elements" % len(mesh.elements)
#mesh.write_vtk("gun.vtk")
fvi2fm = mesh.face_vertex_indices_to_face_marker
def zper_boundary_tagger(fvi, el, fn, points):
face_marker = fvi2fm[frozenset(fvi)]
if face_marker == MINUS_Z_MARKER:
return ["minus_z"]
elif face_marker == PLUS_Z_MARKER:
return ["plus_z"]
else:
return ["shell"]
vertices = numpy.asarray(mesh.points, dtype=float, order="C")
from hedge.mesh import make_conformal_mesh_ext
from hedge.mesh.element import Tetrahedron
return make_conformal_mesh_ext(
vertices, [
Tetrahedron(i, el_idx, vertices)
for i, el_idx in enumerate(mesh.elements)
],
zper_boundary_tagger,
periodicity=[None, None, ("minus_z", "plus_z")])
def make_wingmesh():
import numpy
from math import pi, cos, sin
from meshpy.tet import MeshInfo, build
from meshpy.geometry import GeometryBuilder, Marker, \
generate_extrusion, make_box
geob = GeometryBuilder()
profile_marker = Marker.FIRST_USER_MARKER
wing_length = 2
wing_subdiv = 5
rz_points = [
(0, -wing_length * 1.05),
(0.7, -wing_length * 1.05),
] + [(r, x) for x, r in zip(
numpy.linspace(-wing_length, 0, wing_subdiv, endpoint=False),
numpy.linspace(0.8, 1, wing_subdiv, endpoint=False))] + [(1, 0)] + [
(r, x) for x, r in zip(
numpy.linspace(wing_length, 0, wing_subdiv, endpoint=False),
numpy.linspace(0.8, 1, wing_subdiv, endpoint=False))
][::-1] + [(0.7, wing_length * 1.05), (0, wing_length * 1.05)]
from meshpy.naca import get_naca_points
geob.add_geometry(*generate_extrusion(
rz_points=rz_points,
base_shape=get_naca_points("0012", number_of_points=20),
ring_markers=(wing_subdiv * 2 + 4) * [profile_marker]))
def deform_wing(p):
x, y, z = p
return numpy.array([
x + 0.8 * abs(z / wing_length)**1.2,
y + 0.1 * abs(z / wing_length)**2, z
])
geob.apply_transform(deform_wing)
points, facets, facet_markers = make_box(
numpy.array([-1.5, -1, -wing_length - 1], dtype=numpy.float64),
numpy.array([3, 1, wing_length + 1], dtype=numpy.float64))
geob.add_geometry(points, facets, facet_markers=facet_markers)
mesh_info = MeshInfo()
geob.set(mesh_info)
mesh_info.set_holes([(0.5, 0, 0)])
mesh = build(mesh_info)
print("%d elements" % len(mesh.elements))
fvi2fm = mesh.face_vertex_indices_to_face_marker
face_marker_to_tag = {
profile_marker: "noslip",
Marker.MINUS_X: "inflow",
Marker.PLUS_X: "outflow",
Marker.MINUS_Y: "inflow",
Marker.PLUS_Y: "inflow",
Marker.PLUS_Z: "inflow",
Marker.MINUS_Z: "inflow"
}
def bdry_tagger(fvi, el, fn, all_v):
face_marker = fvi2fm[fvi]
return [face_marker_to_tag[face_marker]]
from grudge.mesh import make_conformal_mesh
return make_conformal_mesh(mesh.points, mesh.elements, bdry_tagger)
def generate_TetMesh():
bpy.ops.object.mode_set(mode = 'OBJECT', toggle = False)
bpy.context.scene.update()
print("Scene Updated!")
config = bpy.context.scene.CONFIG_MeshPy
tetIndex = 0
vertList = []
faceList = []
meshPoints = []
meshFacets = []
split_faceList = []
split_vertList = []
ob = bpy.context.active_object
obname = ob.name
#convert all faces to triangles for testing
### that did not help with the crash problem:(
'''
for vert in ob.data.vertices:
vert.select = True
bpy.ops.object.mode_set(mode = 'EDIT', toggle = False)
bpy.ops.mesh.quads_convert_to_tris()
bpy.ops.object.mode_set(mode = 'OBJECT', toggle = False)
'''
#compute mesh
compute_vertices(ob, meshPoints)
compute_faces(ob, meshFacets)
if config.make_subdivision == False:
arg = "Y"
else:
arg = ""
mesh_info = MeshInfo()
mesh_info.set_points(meshPoints)
mesh_info.set_facets(meshFacets)
debugArg = ""
args = (debugArg + "pq" + str(config.ratio_quality) + "a" + str(config.ratio_maxsize) + str(arg))
#args = ("o2" + str(arg))
tetmesh = build(mesh_info, Options(args),
verbose = True,
attributes = False,
volume_constraints = False,
max_volume = None,
diagnose = False,
insert_points = None)
compute_mesh(tetmesh, vertList, faceList)
##all this should only be executed when preview is disabled
if config.make_split == True:
##add counter to iterate to iterate the loop through all tetras
#print(len(tetmesh.elements))
while tetIndex < len(tetmesh.elements):
compute_mesh_split(tetmesh, split_faceList, split_vertList, vertList)
#print("split_faceList ", tetIndex, ": ", split_faceList[tetIndex])
#print("split_vertList ", tetIndex, ": ", split_vertList[tetIndex])
#put this in a separate loop maybe bring some speed up
#create mesh
tetname = obname + "Tet"
tet = create_mesh(tetname, split_vertList[tetIndex], split_faceList[tetIndex])
#run configs
enable_game(config, tet)
enable_physics(config, tet, tetname)
#bpy.ops.group.create(name='test')
world_correction(config, ob, tet)
tetIndex = tetIndex + 1
else:
#create mesh
tetname = obname + "Tet"
tetMesh = create_mesh(tetname, vertList, faceList)
#run configs
enable_game(config, tetMesh)
enable_physics(config, tetMesh, tetname)
world_correction(config, ob, tetMesh)
x = np.sin(theta)
y = np.cos(theta)
base.extend([(x, y)])
(points, facets, facet_holestarts,
markers) = generate_extrusion(rz_points=rz, base_shape=base)
p_array = np.array(points)
xs = p_array[:, 0]
ys = p_array[:, 1]
zs = p_array[:, 2]
fig = plt.figure()
ax = fig.add_subplot(111, projection='3d')
ax.scatter(xs, ys, zs)
for f in facets:
plt.plot(xs[list(f[0])], ys[list(f[0])], zs[list(f[0])])
plt.show()
for i_facet, poly_list in enumerate(facets):
print(poly_list)
mesh_info = MeshInfo()
mesh_info.set_points(points)
mesh_info.set_facets_ex(facets, facet_holestarts, markers)
mesh = build(mesh_info)
print(mesh.elements)
mesh.write_vtk('test.vtk')
def make_box_mesh(a=(0, 0, 0), b=(1, 1, 1),
max_volume=None, periodicity=None,
boundary_tagger=(lambda fvi, el, fn, all_v: []),
return_meshpy_mesh=False):
"""Return a mesh for a brick from the origin to `dimensions`.
*max_volume* specifies the maximum volume for each tetrahedron.
*periodicity* is either None, or a triple of bools, indicating
whether periodic BCs are to be applied along that axis.
See :func:`make_conformal_mesh` for the meaning of *boundary_tagger*.
A few stock boundary tags are provided for easy application
of boundary conditions, namely plus_[xyz] and minus_[xyz] tag
the appropriate faces of the brick.
"""
def count(iterable):
result = 0
for i in iterable:
result += 1
return result
from meshpy.tet import MeshInfo, build
from meshpy.geometry import make_box
points, facets, _, facet_markers = make_box(a, b)
mesh_info = MeshInfo()
mesh_info.set_points(points)
mesh_info.set_facets(facets, facet_markers)
if periodicity is None:
periodicity = (False, False, False)
axes = ["x", "y", "z"]
per_count = count(p for p in periodicity if p)
marker_to_tag = {}
mesh_periodicity = []
periodic_tags = set()
if per_count:
mesh_info.pbc_groups.resize(per_count)
pbc_group_number = 0
for axis, axis_per in enumerate(periodicity):
minus_marker = 1+2*axis
plus_marker = 2+2*axis
minus_tag = "minus_"+axes[axis]
plus_tag = "plus_"+axes[axis]
marker_to_tag[minus_marker] = minus_tag
marker_to_tag[plus_marker] = plus_tag
if axis_per:
pbcg = mesh_info.pbc_groups[pbc_group_number]
pbc_group_number += 1
pbcg.facet_marker_1 = minus_marker
pbcg.facet_marker_2 = plus_marker
translation = [0, 0, 0]
translation[axis] = b[axis]-a[axis]
pbcg.set_transform(translation=translation)
mesh_periodicity.append((minus_tag, plus_tag))
periodic_tags.add(minus_tag)
periodic_tags.add(plus_tag)
else:
mesh_periodicity.append(None)
generated_mesh = build(mesh_info, max_volume=max_volume)
fvi2fm = generated_mesh.face_vertex_indices_to_face_marker
def wrapped_boundary_tagger(fvi, el, fn, all_v):
face_tag = marker_to_tag[fvi2fm[frozenset(fvi)]]
if face_tag in periodic_tags:
return [face_tag]
else:
return [face_tag] + boundary_tagger(fvi, el, fn, all_v)
from hedge.mesh import make_conformal_mesh_ext
from hedge.mesh.element import Tetrahedron
vertices = numpy.asarray(generated_mesh.points, dtype=float, order="C")
result = make_conformal_mesh_ext(
vertices,
[Tetrahedron(i, el_idx, vertices)
for i, el_idx in enumerate(generated_mesh.elements)],
wrapped_boundary_tagger,
periodicity=mesh_periodicity)
if return_meshpy_mesh:
return result, generated_mesh
else:
return result
def make_extrusion_with_fine_core(rz, inner_r,
max_volume_inner=1e-4, max_volume_outer=5e-2,
radial_subdiv=20):
min_z = min(rz_pt[1] for rz_pt in rz)
max_z = max(rz_pt[1] for rz_pt in rz)
from meshpy.tet import MeshInfo, build
from meshpy.geometry import generate_surface_of_revolution
MINUS_Z_MARKER = 1
PLUS_Z_MARKER = 2
inner_points, inner_facets, inner_holes, inner_markers = \
generate_surface_of_revolution(
[
(0, min_z),
(inner_r, min_z),
(inner_r, max_z),
(0, max_z),
],
ring_markers=[
MINUS_Z_MARKER,
0,
PLUS_Z_MARKER
],
radial_subdiv=radial_subdiv,
)
inner_point_indices = tuple(range(len(inner_points)))
outer_points, outer_facets, outer_holes, outer_markers = \
generate_surface_of_revolution(
[(inner_r,min_z)] + rz + [(inner_r, max_z)],
ring_markers=[MINUS_Z_MARKER] + [0]*(len(rz)-1) + [PLUS_Z_MARKER],
point_idx_offset=len(inner_points),
radial_subdiv=radial_subdiv,
ring_point_indices=
[ inner_point_indices[:radial_subdiv] ]
+ [None]*len(rz)
+ [inner_point_indices[radial_subdiv:]]
)
mesh_info = MeshInfo()
mesh_info.set_points(inner_points + outer_points)
mesh_info.set_facets_ex(
inner_facets + outer_facets,
inner_holes + outer_holes,
inner_markers + outer_markers,
)
# set regional max. volume
mesh_info.regions.resize(2)
mesh_info.regions[0] = [0, 0, (max_z+min_z)/2, 0,
max_volume_inner]
mesh_info.regions[1] = [inner_r+(rz[0][0]-inner_r)/2, 0, (max_z+min_z)/2, 0,
max_volume_outer]
# add periodicity
mesh_info.pbc_groups.resize(1)
pbcg = mesh_info.pbc_groups[0]
pbcg.facet_marker_1 = MINUS_Z_MARKER
pbcg.facet_marker_2 = PLUS_Z_MARKER
pbcg.set_transform(translation=[0,0,max_z-min_z])
mesh = build(mesh_info, verbose=True, volume_constraints=True)
#print "%d elements" % len(mesh.elements)
#mesh.write_vtk("gun.vtk")
fvi2fm = mesh.face_vertex_indices_to_face_marker
def zper_boundary_tagger(fvi, el, fn, points):
face_marker = fvi2fm[frozenset(fvi)]
if face_marker == MINUS_Z_MARKER:
return ["minus_z"]
elif face_marker == PLUS_Z_MARKER:
return ["plus_z"]
else:
return ["shell"]
vertices = numpy.asarray(mesh.points, dtype=float, order="C")
from hedge.mesh import make_conformal_mesh_ext
from hedge.mesh.element import Tetrahedron
return make_conformal_mesh_ext(
vertices,
[Tetrahedron(i, el_idx, vertices)
for i, el_idx in enumerate(mesh.elements)],
zper_boundary_tagger,
periodicity=[None, None, ("minus_z", "plus_z")])
def generateConeMesh(plot=True):
x0 = 0
y0 = 0
z0 = 1
h = 1
r_bottom = 1.3
r_top = 1.5
r_scale = r_top / r_bottom
rz = [(0, z0),
(1, z0),
(r_scale, z0 + h),
(0, z0 + h)]
base = []
# Create circle
for theta in np.linspace(0, 2 * np.pi, 40):
x = r_bottom * np.sin(theta)
y = r_bottom * np.cos(theta)
base.extend([(x, y)])
(points, facets,
facet_holestarts, markers) = generate_extrusion(rz_points=rz,
base_shape=base)
if plot:
p_array = np.array(points)
xs = p_array[:, 0] + x0
ys = p_array[:, 1] + y0
zs = p_array[:, 2]
fig = plt.figure()
ax = fig.add_subplot(111, projection='3d')
ax.scatter(xs, ys, zs)
for f in facets:
plt.plot(xs[list(f[0])], ys[list(f[0])], zs[list(f[0])])
if True:
axLim = ax.get_w_lims()
MAX = np.max(axLim)
for direction in (-1, 1):
for point in np.diag(direction * MAX * np.array([1, 1, 1])):
ax.plot(
[point[0]], [point[1]], [np.abs(point[2])], 'w')
x = [0, 0]
y = [0, 0]
z = [1, 1 + 0.2]
plt.plot(x, y, z)
plt.show()
mesh_info = MeshInfo()
mesh_info.set_points(points)
mesh_info.set_facets_ex(facets)
mesh = build(mesh_info)
# print(mesh.elements)
cellList = []
vertexList = []
mupifMesh = Mesh.UnstructuredMesh()
for i, p in enumerate(mesh.points):
p = (p[0] + x0, p[1] + y0, p[2])
vertexList.extend([Vertex.Vertex(i, i, p)])
for i, t in enumerate(mesh.elements):
cellList.extend([Cell.Tetrahedron_3d_lin(mupifMesh, i, i, t)])
mupifMesh.setup(vertexList, cellList)
return(mupifMesh)
from meshpy.tet import MeshInfo, build
mesh_info = MeshInfo()
# construct a two-box extrusion of this base
base = [(-2, -2, 0), (2, -2, 0), (2, 2, 0), (-2, 2, 0)]
# first, the nodes
mesh_info.set_points(base + [(x, y, z + 5)
for x, y, z in base] + [(x, y, z + 10)
for x, y, z in base])
# next, the facets
# vertex indices for a box missing the -z face
box_without_minus_z = [
[4, 5, 6, 7],
[0, 4, 5, 1],
[1, 5, 6, 2],
[2, 6, 7, 3],
[3, 7, 4, 0],
]
def add_to_all_vertex_indices(facets, increment):
return [[pt + increment for pt in facet] for facet in facets]
mesh_info.set_facets(
[[0, 1, 2, 3]] # base
+ box_without_minus_z # first box
def ProcessGlobalAction(ActionType, GlobalAction, NumberedPoints, Elements, Points):
ExtendedData = {'ElementPropertyIndex' : {}}
if ActionType == 'SpecialEntities':
Filters = json.loads(GlobalAction['Filters'])
if not 'SpecialEntities' in ExtendedData:
ExtendedData['SpecialEntities'] = []
for Element in Elements:
if Element and Element['filter'] in Filters:
ExtendedData['SpecialEntities'].append(Element)
return ExtendedData, False
if ActionType == 'Nonlinear':
Output = {}
#for key in GlobalAction:
# if 'ElementPropertyMaxIndex' in ExtendedData:
# ExtendedData['ElementPropertyMaxIndex'] += 1
# else:
# ExtendedData['ElementPropertyMaxIndex'] = 1
# propertyindex = ExtendedData['ElementPropertyMaxIndex']
# ExtendedData['ElementPropertyIndex'][key] = propertyindex
# ExtendedData['NonlinearPropertyIndex'][key] = nonlinearindex
#
#
# ExtendedData['ElementPropertyIndex'][key] = workingindex #In this same notation we can get the index when writing elements
# Output[index] = ""
return ExtendedData, Output #Here we have Output ready to be printed and ExtendedData, a mapper to Output
if ActionType == 'ElementProperties':
Output = {}
for key in GlobalAction:
if 'ElementPropertyMaxIndex' in ExtendedData:
ExtendedData['ElementPropertyMaxIndex'] += 1
else:
ExtendedData['ElementPropertyMaxIndex'] = 1
workingindex = ExtendedData['ElementPropertyMaxIndex']
ExtendedData['ElementPropertyIndex'][key] = workingindex #In this same notation we can get the index when writing elements
Output[workingindex] = GlobalAction[key]
return ExtendedData, Output #Here we have Output ready to be printed and ExtendedData, a mapper to Output
if ActionType == 'Orphans':
Output = []
for Number, Point in NumberedPoints['points'].iteritems():
ElementAmount = len(Point['elementnumbers'])
if ElementAmount < 2:
print "Orphan node {}!".format(Number)
Output.append({'element_type': 'POINT', 'position': Point['point'], 'layer': 'Errors', 'nodenumber': Number})
return {'information':'addObjects'}, Output#Here we have Output ready to be printed and ExtendedData, a mapper to Output
if ActionType == 'Meshing':
EntityModelData = json.loads(GlobalAction['EntityModelData']) if 'EntityModelData' in GlobalAction else {}
ExtendedModelData = json.loads(GlobalAction['ExtendedModelData']) if 'ExtendedModelData' in GlobalAction else {}
Semantic = json.loads(GlobalAction['Semantic']) if 'Semantic' in GlobalAction else {}
if 'exclude filters' in Semantic:
if not 'ExcludeFilters' in ExtendedData: ExtendedData['ExcludeFilters'] = []
ExtendedData['ExcludeFilters'] = ExtendedData['ExcludeFilters'] + Semantic['exclude filters']
Boundaries = []
Output = []
Geometry = json.loads(GlobalAction['Geometry']) if 'Geometry' in GlobalAction else {}
Parameters = json.loads(GlobalAction['Parameters']) if 'Parameters' in GlobalAction else {}
AdditionalPointsFilters = Geometry['points'] if 'points' in Geometry else []
for Filter in Geometry['boundaries']:
print "Using filter {} as finite element domain boundary.".format(Filter)
for Element in Elements:
if Element and Element['filter'] == Filter and Element['elementclass'] in ['FACE_3NODES', 'FACE_4NODES', 'POLYLINE', 'PLINE_5NODES']:
Boundaries.append(Element)
AdditionalPoints = []
for Filter in AdditionalPointsFilters:
print "Using filter {} as additional points container.".format(Filter)
for Element in Elements:
if Element and Element['filter'] == Filter and Element['elementclass'] in ['FACE_3NODES', 'FACE_4NODES', 'POLYLINE', 'LINE_2NODES']:
AdditionalPoints.extend(
Element['points']
)
print "Assembling FE domain"
mesh_info = MeshInfo()
#additional_points = MeshInfo()
#additional_points.set_points(list(set(AdditionalPoints)))
MeshPoints = []
MeshFacets = []
MeshPointsIndex = {}
PointIndex = 0
for BoundaryElement in Boundaries:
ElementPoints = BoundaryElement['points']
MeshFacet = []
if Parameters['type'] == 'divide_4p_faces':
for point in [ElementPoints[0],ElementPoints[1],ElementPoints[2]]:
if not point in MeshPointsIndex:
MeshPointsIndex[point] = PointIndex
MeshPoints.append(False)
MeshPoints[PointIndex] = NumberedPoints['points'][point]['point']
PointIndex += 1
MeshFacet.append(MeshPointsIndex[point])
MeshFacets.append(MeshFacet)
MeshFacet = []
if ElementPoints[2] != ElementPoints[3]:
for point in [ElementPoints[0],ElementPoints[2],ElementPoints[3]]:
if not point in MeshPointsIndex:
MeshPointsIndex[point] = PointIndex
MeshPoints.append(False)
MeshPoints[PointIndex] = NumberedPoints['points'][point]['point']
PointIndex += 1
MeshFacet.append(MeshPointsIndex[point])
MeshFacets.append(MeshFacet)
else:
for point in ElementPoints:
if not point in MeshPointsIndex:
MeshPointsIndex[point] = PointIndex
MeshPoints.append(False)
MeshPoints[PointIndex] = NumberedPoints['points'][point]['point']
PointIndex += 1
if not MeshPointsIndex[point] in MeshFacet:
MeshFacet.append(MeshPointsIndex[point])
else:
print "Mesh error or 3-point 3DFACE."
MeshFacets.append(MeshFacet)
MeshFacet = []
for point in list(set(AdditionalPoints)):
if not point in MeshPointsIndex: #See whether the point is already indexed by its native number
MeshPointsIndex[point] = PointIndex
MeshPoints.append(False)
MeshPoints[PointIndex] = NumberedPoints['points'][point]['point']
PointIndex += 1
saveobject(MeshFacets, r'MeshFacets')
saveobject(MeshPoints, r'MeshPoints')
mesh_info.set_facets(MeshFacets)
mesh_info.set_points(MeshPoints)
#insertaddpoints
#points = np.array([list(x) for x in MeshPoints])
#qhull = scipy.spatial.Delaunay(points)
#mesh_info.Options(switches='pq')
#mesh_info.set_points([
# (0,0,0), (12,0,0), (12,12,0), (0,12,0),
# (0,0,12), (12,0,12), (12,12,12), (0,12,12),
# ])
#mesh_info.set_facets([
# [0,1,2,3],
# [4,5,6,7],
# [0,4,5,1],
# [1,5,6,2],
# [2,6,7,3],
# [3,7,4,0],
# ])
#opts = Options(switches='pq')
#opts.maxvolume = 0.0001
#opts.parse_switches()
mesh_info.regions.resize(1)
mesh_info.regions[0] = [
MeshPoints[0][0], MeshPoints[0][1], MeshPoints[0][2], # point in volume -> first box
0, # region tag (user-defined number)
Parameters['maxvolume'], # max tet volume in region
]
mesh = build(mesh_info, options=Options(switches="pqT", epsilon=Parameters['tolerance']), volume_constraints=True)
print "Created mesh with {} points, {} faces and {} elements.".format(len(mesh.points), len(mesh.faces), len(mesh.elements))
#mesh = build(mesh_info, options=Options(switches="pTi", epsilon=Parameters['tolerance'], insertaddpoints=True), volume_constraints=True, insert_points=additional_points)
#mesh.write_vtk("test.vtk")
#mesh.points
#mesh.elements
#mesh.faces
filename = "test"
#mesh.save_elements(filename)
#mesh.save_nodes(filename)
#mesh.save_elements(filename)
#mesh.save_faces(filename)
#mesh.save_edges(filename)
#mesh.save_neighbors(filename)
#mesh.save_poly(filename)
#for element in qhull.simplices:
# Position = [list(qhull.points[x]) for x in element]
# Output.append({'element_type': '3DFACE', 'position': Position, 'layer': 'Elements'})
#NumberedPoints['points'][compoundObject['points'][0]]['point']
if not Boundaries: return False, False
Precision = int(GlobalAction['Precision']) if 'Precision' in GlobalAction else 4
if not 'output' in Semantic or Semantic['output'].lower() == 'graphics':
for face in mesh.faces:
Position = [mesh.points[x] for x in face]
Output.append({'element_type': '3DFACE', 'position': Position, 'layer': 'Faces'})
for element in mesh.elements:
Position = [mesh.points[x] for x in element]
Output.append({'element_type': '3DFACE', 'position': Position, 'layer': 'Elements'})
return {'information':'addObjects'}, Output
elif Semantic['output'].lower() == 'fea':
Points = {}
for NumberedPoint in NumberedPoints['points']:
Points[NumberedPoints['points'][NumberedPoint]['point']] = NumberedPoint
NodeNumber = NumberedPoints['maximumNode']
for element in mesh.elements:
Position = [mesh.points[x] for x in element]
for i, point in enumerate(Position):
Position[i] = [round(x, Precision) for x in point]
#else:
# if tuple([round(x, PrepPrecision) for x in Coords]) in [(4.95,-17.69,58.9), (4.96,-17.69,58.9)]:
# pass
# object['points'][i] = tuple([round(x, PrepPrecision) for x in Coords])
# if not object['points'][i] in GlobalPointIndex:
# GlobalPointIndex.append(object['points'][i])
ElementPoints = []
ElementNumber = len(Elements)
for point in Position:
#Update NumberedPoints and construct all necessary data for Elements
point = NeighborhoodRaw(tuple(point), Precision, Points)
if not tuple(point) in Points:
NodeNumber += 1
Points[tuple(point)] = NodeNumber
#PointsNumbered.append(None)
NumberedPoints['points'][NodeNumber] = {'point': tuple(point), 'elementnumbers': []}
NumberedPoints['maximumNode'] = NodeNumber
CurrentPointNumber = Points[tuple(point)]
ElementPoints.append(CurrentPointNumber)
NumberedPoints['points'][CurrentPointNumber]['elementnumbers'].append(ElementNumber)
#Update Points if possible
#Update Elements
Element = { 'points' : ElementPoints,
'elementclass' : 'SOLID_4NODES',
'elementnum': ElementNumber, #???
'filter': Semantic['filter'],
'entity_model_data': EntityModelData,
'extended_model_data': ExtendedModelData,
'generation_order': None,
}
Elements.append(None)
Elements[ElementNumber] = Element
return ExtendedData, False
if ActionType == 'AddShells':
ExtendedData = {}
EntityModelData = json.loads(GlobalAction['EntityModelData']) if 'EntityModelData' in GlobalAction else {}
ExtendedModelData = json.loads(GlobalAction['ExtendedModelData']) if 'ExtendedModelData' in GlobalAction else {}
Filters = json.loads(GlobalAction['Filters']) if 'Filters' in GlobalAction else {}
for Element in Elements:
if not Element or not Element['filter'] in Filters: continue
if Element['generation_order'] == 0 and Element['entity_model_data']['layer'] != "Concrete bases crown":
ElementPoints = [Element['points'][0], Element['points'][1], Element['points'][2]]
ElementNumber = len(Elements)
NewElement = { 'points' : ElementPoints,
'elementclass' : 'FACE_3NODES',
'elementnum': ElementNumber, #???
'filter': GlobalAction['AssignedFilter'],
'entity_model_data': EntityModelData,
'extended_model_data': ExtendedModelData,
'generation_order': None,
}
Elements.append(None)
Elements[ElementNumber] = NewElement
if Element['elementclass'] == 'SOLID_8NODES':
ElementPoints = [Element['points'][0], Element['points'][2], Element['points'][3]]
ElementNumber = len(Elements)
NewElement = { 'points' : ElementPoints,
'elementclass' : 'FACE_3NODES',
'elementnum': ElementNumber, #???
'filter': GlobalAction['AssignedFilter'],
'entity_model_data': EntityModelData,
'extended_model_data': ExtendedModelData,
'generation_order': None,
}
Elements.append(None)
Elements[ElementNumber] = NewElement
if Element['elementclass'] == 'SOLID_10NODES':
pass
pass
return {}, {}
return False
def save_mesh(filepath,
mesh,
boundary_condition,
use_graphics,
fem_dimensions,
mass_density,
poisson_ratio,
young_modulus,
meshpy
):
"""Write mesh data out to ply file
If graphics are checked to be exported, it will prep any UVs and normals it can and prepare
a full list of faces FEM3D meshes have their mesh run through MeshPy which is a Python
interface for TetGen
"""
file = open(filepath, "w", encoding="utf8", newline="\n")
fwrite = file.write
verts = []
faces = []
elements = []
uvcoords = {}
normals = {}
has_uv = bool(mesh.uv_textures) and mesh.uv_textures.active
if has_uv and use_graphics:
mesh.calc_tessface()
uv_data = mesh.tessface_uv_textures.active.data
for i, polygon in enumerate(mesh.polygons):
uv = uv_data[i].uv1, uv_data[i].uv2, uv_data[i].uv3, uv_data[i].uv4
for j, vert in enumerate(polygon.vertices):
uvcoord = uv[j][0], uv[j][1]
normal = mesh.vertices[vert].normal[:]
vertcoord = mesh.vertices[vert].co[:]
if vertcoord not in uvcoords:
uvcoords[vertcoord] = uvcoord
if vertcoord not in normals:
normals[vertcoord] = normal
if fem_dimensions == '3':
from meshpy.tet import MeshInfo, build, Options
bpy.ops.object.mode_set(mode='OBJECT', toggle=False)
bpy.context.scene.update()
# get list of verts and faces direct from mesh
mesh_verts = []
for vert in mesh.vertices:
mesh_verts.append(vert.co[:])
mesh_faces = []
for face in mesh.polygons:
mesh_faces.append(face.vertices[:])
args = meshpy
mesh_info = MeshInfo()
mesh_info.set_points(mesh_verts)
mesh_info.set_facets(mesh_faces)
tets = build(mesh_info, Options(args),
verbose=True,
attributes=False,
volume_constraints=False,
max_volume=None,
diagnose=False,
insert_points=None)
# Ply prep by creating updated vert list and face list using tets.points and tets.elements
for point in tets.points:
verts.append((point[0], point[1], point[2]))
for tet in tets.elements:
elements.append((tet[0], tet[1], tet[2], tet[3]))
for face in tets.faces:
faces.append((face[2], face[1], face[0]))
else:
for vert in mesh.vertices:
verts.append((vert.co[0], vert.co[1], vert.co[2]))
for face in mesh.polygons:
if len(face.vertices) == 3:
faces.append((face.vertices[0], face.vertices[1], face.vertices[2]))
else:
faces.append((face.vertices[0], face.vertices[1], face.vertices[2]))
faces.append((face.vertices[0], face.vertices[2], face.vertices[3]))
fwrite("ply\n")
fwrite("format ascii 1.0\n")
fwrite("comment Created by OpenSurgSim FEM exporter for Blender\n")
fwrite("comment MeshPy options '%s'\n" % meshpy)
fwrite("element vertex %d\n" % len(verts))
fwrite("property double x\n"
"property double y\n"
"property double z\n")
if use_graphics:
if fem_dimensions != '1':
if normals:
fwrite("property double nx\n"
"property double ny\n"
"property double nz\n")
if has_uv:
fwrite("property double s\n"
"property double t\n")
fwrite("element face %d\n" % len(faces))
fwrite("property list uint uint vertex_indices\n")
if fem_dimensions == '1':
fwrite("element 1d_element %d\n" % len(mesh.vertices)-1)
fwrite("property list uint uint vertex_indices\n")
elif fem_dimensions == '2':
fwrite("element 2d_element %d\n" % len(faces))
fwrite("property list uint uint vertex_indices\n")
elif fem_dimensions == '3':
fwrite("element 3d_element %d\n" % len(elements))
fwrite("property list uint uint vertex_indices\n")
fwrite("element material 1\n")
fwrite("property double mass_density\n")
fwrite("property double poisson_ratio\n")
fwrite("property double young_modulus\n")
if boundary_condition is not None:
fwrite("element boundary_condition %d\n" % len(boundary_condition))
fwrite("property uint vertex_index\n")
fwrite("end_header\n")
if fem_dimensions != '1':
if use_graphics:
for vert in verts:
fwrite("%.6f %.6f %.6f" % vert[:])
if vert in normals:
fwrite(" %.6f %.6f %.6f" % normals[vert][:])
if has_uv and vert in uvcoords:
fwrite(" %.6f %.6f" % uvcoords[vert][:])
fwrite("\n")
for face in faces:
fwrite("3 %d %d %d\n" % face[:])
else:
for vert in verts:
fwrite("%.6f %.6f %.6f\n" % vert[:])
else:
for vert in mesh.vertices:
fwrite("%.6f %.6f %.6f\n" % vert.co[:])
if fem_dimensions is '1':
for i in len(mesh.vertices)-1:
fwrite("2 %d %d\n" % list(i, i+1))
elif fem_dimensions is '2':
for face in faces:
fwrite("3 %d %d %d\n" % face[:])
elif fem_dimensions is '3':
for tet in elements:
fwrite("4 %d %d %d %d\n" % tet[:])
fwrite("%s %s %s\n" % (mass_density, poisson_ratio, young_modulus))
if boundary_condition is not None:
for index in boundary_condition:
fwrite("%d\n" % index)
file.close()
print("writing %r done" % filepath)
return {'FINISHED'}
# Show the plot to the screen
#pyplot.show()
points = []
for _tri in stl_mesh.vectors:
points = points + [tuple(x) for x in [_tri[0],_tri[1],_tri[2]]]
uniques = np.unique(points, axis=0)
#This needs significant speedup
panels = []
for _tri in stl_mesh.vectors:
_tripnt = []
for _index in range(len(uniques)):
if list(uniques[_index]) in list(list(x) for x in _tri):
_tripnt.append(_index)
panels.append(tuple(_tripnt))
mesh_info = MeshInfo()
mesh_info.set_points(points)
mesh_info.set_facets(panels)
### Plotting
points = np.array(mesh_info.points)
from plotting import scatter3d
scatter3d(points)
##
mesh = build(mesh_info, options=Options(""))
#mesh = build(mesh_info, options=Options("pq"))
mesh.write_vtk("test.vtk")
'''
Created on Jul 10, 2014
@author: BOIRUM
'''
from meshpy.tet import MeshInfo, build
mesh_info = MeshInfo()
mesh_info.set_points([
(0,0,0), (2,0,0), (2,2,0), (0,2,0),
(0,0,12), (2,0,12), (2,2,12), (0,2,12),
])
mesh_info.set_facets([
[0,1,2,3],
[4,5,6,7],
[0,4,5,1],
[1,5,6,2],
[2,6,7,3],
[3,7,4,0],
])
mesh = build(mesh_info)
print "Mesh Points:"
for i, p in enumerate(mesh.points):
print i, p
print "Point numbers in tetrahedra:"
for i, t in enumerate(mesh.elements):
print i, t
mesh.write_vtk("test.vtk")
def make_tetgen_mesh():
global mn_section_dict
global face_marker_plane_dict
# Make single volume
vert_stack = []
face_stack = []
face_marker_stack = []
face_marker_brdr = 1 # are positive
face_marker_surf = -1 # are negative
# Make sure we don't double count any planes
# Sides ids to face marker
plane_sides_ids_done = {}
# Go through all the sections
for sec_id in mn_section_dict.keys():
sec = mn_section_dict[sec_id]
# Check that there are any borders
if len(sec.planes_sc_brdrs[0]) == 0 and len(sec.planes_sc_brdrs[1]) == 0 and sec.plane_surf == -1:
print("Error! No bounding planes for this section!")
# Add the surface plane...
if not sec.plane_surf.sides_ids in plane_sides_ids_done:
vert_stack += [sec.plane_surf.vert_list]
face_stack += [sec.plane_surf.face_list]
face_marker_stack += [len(sec.plane_surf.face_list)*[face_marker_surf]]
face_marker_plane_dict[face_marker_surf] = sec.plane_surf
sec.face_marker_dict[face_marker_surf] = -1
plane_sides_ids_done[sec.plane_surf.sides_ids] = face_marker_surf
face_marker_surf -= 1
else:
# Do this for EVERY section
sec.face_marker_dict[plane_sides_ids_done[sec.plane_surf.sides_ids]] = -1
# And the borders...
for i,brdr in enumerate(sec.planes_sc_brdrs):
for j,plane in enumerate(brdr):
if not plane.sides_ids in plane_sides_ids_done:
vert_stack += [plane.vert_list]
face_stack += [plane.face_list]
# Face marker
face_marker_stack += [len(plane.face_list)*[face_marker_brdr]]
face_marker_plane_dict[face_marker_brdr] = plane
sec.face_marker_dict[face_marker_brdr] = (i,j)
'''
if mn_sec.sc_id == (1,3):
global shared_3_27
PLANE_SHARED = True
for v in shared_3_27:
if not v in plane.vert_list:
PLANE_SHARED = False
break
if PLANE_SHARED:
print("THIS IS THE SHARED PLANE: marker: " + str(face_marker_brdr))
if triplet[0] in shared_3_27 and triplet[1] in shared_3_27 and triplet[2] in shared_3_27:
print("Trip: " + str(triplet) + " is shared; has face marker: " + str(face_marker))
'''
plane_sides_ids_done[plane.sides_ids] = face_marker_brdr
face_marker_brdr += 1
else:
# Do this for EVERY section
sec.face_marker_dict[plane_sides_ids_done[plane.sides_ids]] = (i,j)
# Create a correctly indexed closed volume
vert_list, face_list, face_marker_list = stack_lists(vert_stack,face_stack,face_marker_stack=face_marker_stack)
# Make the tetgen mesh
mesh_info = MeshInfo()
# Points
mesh_info.set_points(vert_list)
# Faces
mesh_info.set_facets(face_list, markers = face_marker_list)
# --- TEMP ---
'''
# Make an object from the surface we are planning to tetrahedronalize
mesh_new = bpy.data.meshes.new("pre_tet_mesh")
mesh_new.from_pydata(vert_list,[],face_list)
mesh_new.validate(verbose=False) # Important! and i dont know why
mesh_new.update()
obj_new = bpy.data.objects.new("pre_tet",mesh_new)
context.scene.objects.link(obj_new)
# return
'''
# --- FIN TEMP ---
# Tetrahedralize
# Options:
# neighout = Write out neighbors
# facesout = Write out faces
# edgesout = Write out edges
# regionattrib = Write out element_attributes = unique id for every tet in a distinct volume
# nobisect = Dont alter surface
print("> Starting TetGen")
opts = Options(switches='pq', neighout = True, facesout = True, edgesout = True, regionattrib = True, verbose = True, docheck = True)
mesh_built = build(mesh_info, options=opts)
print("> Finished TetGen successfully")
return mesh_built
def make_wingmesh():
import numpy
from math import pi, cos, sin
from meshpy.tet import MeshInfo, build
from meshpy.geometry import GeometryBuilder, Marker, \
generate_extrusion, make_box
geob = GeometryBuilder()
profile_marker = Marker.FIRST_USER_MARKER
wing_length = 2
wing_subdiv = 5
rz_points = [
(0, -wing_length*1.05),
(0.7, -wing_length*1.05),
] + [
(r, x) for x, r in zip(
numpy.linspace(-wing_length, 0, wing_subdiv, endpoint=False),
numpy.linspace(0.8, 1, wing_subdiv, endpoint=False))
] + [(1,0)] + [
(r, x) for x, r in zip(
numpy.linspace(wing_length, 0, wing_subdiv, endpoint=False),
numpy.linspace(0.8, 1, wing_subdiv, endpoint=False))
][::-1] + [
(0.7, wing_length*1.05),
(0, wing_length*1.05)
]
from meshpy.naca import get_naca_points
geob.add_geometry(*generate_extrusion(
rz_points=rz_points,
base_shape=get_naca_points("0012", number_of_points=20),
ring_markers=(wing_subdiv*2+4)*[profile_marker]))
def deform_wing(p):
x, y, z = p
return numpy.array([
x + 0.8*abs(z/wing_length)** 1.2,
y + 0.1*abs(z/wing_length)**2,
z])
geob.apply_transform(deform_wing)
points, facets, facet_markers = make_box(
numpy.array([-1.5,-1,-wing_length-1], dtype=numpy.float64),
numpy.array([3,1,wing_length+1], dtype=numpy.float64))
geob.add_geometry(points, facets, facet_markers=facet_markers)
mesh_info = MeshInfo()
geob.set(mesh_info)
mesh_info.set_holes([(0.5,0,0)])
mesh = build(mesh_info)
print "%d elements" % len(mesh.elements)
fvi2fm = mesh.face_vertex_indices_to_face_marker
face_marker_to_tag = {
profile_marker: "noslip",
Marker.MINUS_X: "inflow",
Marker.PLUS_X: "outflow",
Marker.MINUS_Y: "inflow",
Marker.PLUS_Y: "inflow",
Marker.PLUS_Z: "inflow",
Marker.MINUS_Z: "inflow"
}
def bdry_tagger(fvi, el, fn, all_v):
face_marker = fvi2fm[fvi]
return [face_marker_to_tag[face_marker]]
from hedge.mesh import make_conformal_mesh
return make_conformal_mesh(mesh.points, mesh.elements, bdry_tagger)
def area_of_tri(nodes):
v1 = np.array(nodes[0].coord[:2]) - np.array(nodes[1].coord[:2])
v2 = np.array(nodes[0].coord[:2]) - np.array(nodes[2].coord[:2])
area = np.cross(v1, v2) / 2.
return area
if __name__ == "__main__":
#mesh
r = 1
l = 2
rz = [(0, 0), (r, 0), (r, l), (0, l)]
geob = GeometryBuilder()
geob.add_geometry(*generate_surface_of_revolution(
rz, radial_subdiv=20, ring_markers=[1, 2, 3]))
mesh_info = MeshInfo()
geob.set(mesh_info)
mesh = build(mesh_info, max_volume=0.01)
E = 210e6
nu = 0.3
P = 2000
points = np.array(mesh.points)
cells = np.array(mesh.elements)
face_cells = np.array(mesh.faces)
z_face0_cells = [
c for c in face_cells if np.isclose(points[c][:, 2], 0).all()
]
z_face2_cells = [
c for c in face_cells if np.isclose(points[c][:, 2], 2).all()
]