File size: 4,307 Bytes
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raw_fiber_file = "../ibamr/fibers.txt.gz"
raw_sheet_file = ""
raw_mesh_file = "../ibamr/mesh.xda.gz"
output_path = "../mesh/"
temp_path = "../trash/"
cell_types = []
cell_markers = []
cell_nodes = []
mesh_vertices = []
# Open file
import gzip
file_handler = gzip.open(raw_mesh_file, "rt")
for i in range(16):
line = file_handler.readline()
print(line)
line = file_handler.readline()
num_cells = int(line.split('\t')[0])
for i in range(num_cells):
line = file_handler.readline().split(" ")
cell_types.append(int(line[0]))
cell_markers.append(int(line[1]))
local_cell_nodes = []
for j in range(2, len(line)-1):
local_cell_nodes.append(int(line[j]))
cell_nodes.append(local_cell_nodes)
# 节点数量
for i in range(58319):
line = file_handler.readline()
line = line.split(" ")
mesh_vertices.append([float(line[0]), float(line[1]), float(line[2])])
file_handler.close()
num_tets = 0
for i in range(num_cells):
if cell_types[i] == 8 :
num_tets += 1
from fenics import *
mesh = Mesh()
editor = MeshEditor()
editor.open(mesh,"tetrahedron",3,3)
editor.init_vertices(len(mesh_vertices))
editor.init_cells(num_tets)
for i in range(len(mesh_vertices)):
node = Point(mesh_vertices[i][0], mesh_vertices[i][1], mesh_vertices[i][2])
editor.add_vertex(i, node)
elements = []
j = 0
for i in range(num_cells):
if cell_types[i] == 8 :
element = [cell_nodes[i][0], cell_nodes[i][1], cell_nodes[i][2], cell_nodes[i][3]]
elements.append(element)
editor.add_cell(j,element)
# print(i,j)
j+=1
nodes = []
for i in range(len(elements)):
element = elements[i]
nodes.append(mesh_vertices[element[0]])
nodes.append(mesh_vertices[element[1]])
nodes.append(mesh_vertices[element[2]])
nodes.append(mesh_vertices[element[3]])
editor.close()
xdmf = XDMFFile(output_path+"mesh.xdmf")
xdmf.write(mesh)
xdmf.close()
# fibers = []
# file_handler = open(raw_fiber_file, "r")
# while True:
# line = file_handler.readline()
# if line == '':
# break
# else :
# line = line.split("\n")[0].split("\t")
# fiber = [float(line[1]), float(line[2]), float(line[3])]
# fibers.append(fiber)
# file_handler.close()
materials_remarked = MeshFunction("size_t", mesh, 3, 4)
for i in range(num_tets):
materials_remarked[i] = cell_markers[i]
File(output_path + "materials_remarked.xml") << materials_remarked
# File(temp_path + "materials_remarked.pvd") << materials_remarked
bdry_remarked = MeshFunction("size_t", mesh, 2, 2)
File(output_path + "boundaries_remarked.xml") << bdry_remarked
# f0 = MeshFunction("double", mesh, 3, 0.0)
# f1 = MeshFunction("double", mesh, 3, 0.0)
# f2 = MeshFunction("double", mesh, 3, 0.0)
# for i in range(f1.size()):
# f0[i] = fibers[i][0]
# f1[i] = fibers[i][0]
# f2[i] = fibers[i][0]
# class F1(UserExpression):
# def __init__(self, mesh, f0, f1, f2, *arg, **kwargs):
# super().__init__(*arg, **kwargs)
# self.mesh = mesh
# self.f0 = f0
# self.f1 = f1
# self.f2 = f2
# def eval_cell(self, values, x, cell):
# values[0] = f0[cell.index]
# values[1] = f1[cell.index]
# values[2] = f2[cell.index]
# def value_shape(self):
# return (3,)
# V = VectorFunctionSpace(mesh, 'DG', 2)
# e1 = F1(mesh, f0, f1, f2, degree=2)
# u1 = interpolate(e1, V)
# f1 = Function(V)
# File("fibers.pvd") << f1
# xdmf = XDMFFile("mesh.xdmf")
# xdmf.write(f1)
# xdmf.close()
# File("mesh.pvd") << mesh
# TODO : I can generate tube mesh with mshr.
# mesh_2 = Mesh()
# editor.open(mesh_2, "hexahedron", 3, 3)
# editor.init_vertices(len(mesh_vertices))
# editor.init_cells(num_cells - num_tets)
#
# for i in range(len(mesh_vertices)):
# node = Point(mesh_vertices[i][0], mesh_vertices[i][1], mesh_vertices[i][2])
# editor.add_vertex(i, node)
#
# j = 0
# for i in range(num_cells):
# if cell_types[i] is 10 :
# element = [cell_nodes[i][0], cell_nodes[i][1], cell_nodes[i][2], cell_nodes[i][3], cell_nodes[i][4], cell_nodes[i][5], cell_nodes[i][6], cell_nodes[i][7]]
# editor.add_cell(j,element)
# j+=1
#
#
# editor.close()
#
# xdmf = XDMFFile("mesh_2.xdmf")
# xdmf.write(mesh_2)
# xdmf.close()
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