| raw_fiber_file = "../ibamr/fibers.txt.gz" |
| raw_sheet_file = "" |
| raw_mesh_file = "../ibamr/mesh.xda.gz" |
| output_path = "../mesh/" |
| temp_path = "../trash/" |
|
|
|
|
|
|
| from fenics import * |
| mesh_file = XDMFFile(output_path+"mesh.xdmf") |
| mesh = Mesh() |
| mesh_file.read(mesh) |
| mesh_file.close() |
|
|
|
|
| fibers = [] |
| import gzip |
| file_handler = gzip.open(raw_fiber_file, "rt") |
| 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() |
|
|
| 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][1] |
| f2[i] = fibers[i][2] |
|
|
| File(output_path + "fibers_0.xml") << f0 |
| File(output_path + "fibers_1.xml") << f1 |
| File(output_path + "fibers_2.xml") << f2 |
| 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] = self.f0[cell.index] |
| values[1] = self.f1[cell.index] |
| values[2] = self.f2[cell.index] |
| def value_shape(self): |
| return (3,) |
|
|
| V = VectorFunctionSpace(mesh, 'CG', 1) |
| e1 = F1(mesh, f0, f1, f2, degree=2) |
| u1 = interpolate(e1, V) |
|
|
| File(temp_path + "fibers.pvd") << u1 |
