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