def fluid_velocity_initial_condition(self):
#return (0.0,)*spatial_dimension
return (0.0, 0.0, 0.0)
def fluid_pressure_initial_condition(self):
return (0.0)
def fluid_pressure_dirichlet_boundaries(self):
return ["GammaFSI"]
def fluid_pressure_dirichlet_values(self):
return [self.P_Fwave]
def fluid_donothing_boundaries(self):
return [LEFTINFLOW, RIGHTINFLOW]
def structure_dirichlet_values(self):
return [(0, 0, 0), (0, 0, 0)]
def structure_dirichlet_boundaries(self):
return [LEFTSTRUC, RIGHTSTRUC]
# Define and solve problem
if __name__ == "__main__":
problem = BloodVessel3D()
solver = FSINewtonSolver(
problem, application_parameters["FSINewtonSolver"].to_dict())
solver.solve()
interactive()
def solve_primal(self, problem, parameters):
"Solve primal FSI problem"
#def __init__()
# Get parameters
T = problem.end_time()
dt = initial_timestep(problem, parameters)
TOL = parameters["tolerance"]
w_k = parameters["w_k"]
w_c = parameters["w_c"]
save_solution = parameters["save_solution"]
uniform_timestep = parameters["uniform_timestep"]
plot_solution = parameters["plot_solution"]
# Create files for saving to VTK
level = refinement_level()
if save_solution:
files = (File("%s/pvd/level_%d/u_F.pvd" %
(parameters["output_directory"], level)),
File("%s/pvd/level_%d/p_F.pvd" %
(parameters["output_directory"], level)),
File("%s/pvd/level_%d/U_S.pvd" %
(parameters["output_directory"], level)),
File("%s/pvd/level_%d/P_S.pvd" %
(parameters["output_directory"], level)),
File("%s/pvd/level_%d/U_M.pvd" %
(parameters["output_directory"], level)))
# Create time series for storing solution
primal_series = create_primal_series(parameters)
# Create time series for dual solution
if level > 0:
dual_series = create_dual_series(parameters)
else:
dual_series = None
# Record CPU time
cpu_time = python_time()
# Record number of time steps
timestep_counter = 0
# Update of user problem at t = 0 (important for initial conditions)
problem.update(0.0, 0.0, dt)
# Define the three subproblems
F = FluidProblem(problem, solver_type=parameters["fluid_solver"])
S = StructureProblem(problem, parameters)
M = MeshProblem(problem, parameters)
# Get solution values
u_F0, u_F1, p_F0, p_F1 = F.solution_values()
U_M0, U_M1 = M.solution_values()
# Extract number of dofs
num_dofs_FSM = extract_num_dofs(F, S, M)
info("FSI problem has %d dofs (%d + %d + %d)" % \
(num_dofs_FSM, F.num_dofs, S.num_dofs, M.num_dofs))
# Get initial structure displacement (used for plotting and checking convergence)
structure_element_degree = parameters["structure_element_degree"]
V_S = VectorFunctionSpace(problem.structure_mesh(), "CG",
structure_element_degree)
U_S0 = Function(V_S)
# Save initial solution to file and series
U = extract_solution(F, S, M)
if save_solution:
_save_solution(U, files)
write_primal_data(U, 0, primal_series)
# Initialize adaptive data
init_adaptive_data(problem, parameters)
# Initialize time-stepping
t0 = 0.0
t1 = dt
at_end = abs(t1 - T) / T < 100.0 * DOLFIN_EPS
# Initialize integration of goal functional (assuming M(u) = 0 at t = 0)
integrated_goal_functional = 0.0
old_goal_functional = 0.0
# Get reference value of goal functional
if hasattr(problem, "reference_value"):
reference_value = problem.reference_value()
else:
reference_value = None
if parameters["primal_solver"] == "Newton":
#If no initial_step function try to generate one
if not hasattr(problem, "initial_step"):
problem.initial_step = lambda: parameters["initial_timestep"]
# Initialize an FSINewtonSolver Object
fsinewtonsolver = FSINewtonSolver(problem,\
params = parameters["FSINewtonSolver"].to_dict())
#initialize the solve settings
fsinewtonsolver.prepare_solve()
#def solve_primal()
while True:
# Display progress
info("")
info("-" * 80)
begin("* Starting new time step")
info_blue(" * t = %g (T = %g, dt = %g)" % (t1, T, dt))
# Update of user problem
problem.update(t0, t1, dt)
# Compute tolerance for FSI iterations
itertol = compute_itertol(problem, w_c, TOL, dt, t1, parameters)
if parameters["primal_solver"] == "Newton":
#Newtonsolver has it's own timings
assert save_solution, "Parameter save_solution must be true to use the Newton Solver"
U_S1, U_S0, P_S1, increment, numiter = newton_solve(
F, S, M, U_S0, dt, parameters, itertol, problem,
fsinewtonsolver)
elif parameters["primal_solver"] == "fixpoint":
timings.startnext("FixpointSolve")
U_S0, U_S1, P_S1, increment, numiter = fixpoint_solve(
F, S, U_S0, M, dt, t1, parameters, itertol, problem)
timings.stop("FixpointSolve")
else:
raise Exception(
"Only 'fixpoint' and 'Newton' are possible values \
for the parameter 'primal_solver'")
self.g_numiter = numiter
#####################################################
#The primal solve worked so now go to post processing
#####################################################
#def postprocessing():
# Plot solution
if plot_solution:
_plot_solution(u_F1, p_F1, U_S0, U_M1)
if problem.exact_solution() is not None:
update_exactsol(u_F1, p_F1, U_S1, U_M1, F, problem, t1)
info("")
info_green(
"Increment = %g (tolerance = %g), converged after %d iterations"
% (increment, itertol, numiter + 1))
info("")
end()
# Saving number of FSI iterations
save_no_FSI_iter(t1, numiter + 1, parameters)
# Evaluate user goal functional
goal_functional = assemble(
problem.evaluate_functional(u_F1, p_F1, U_S1, P_S1, U_M1, dx,
dx, dx))
# Integrate goal functional
integrated_goal_functional += 0.5 * dt * (old_goal_functional +
goal_functional)
old_goal_functional = goal_functional
# Save goal functional
save_goal_functional(t1, goal_functional,
integrated_goal_functional, parameters)
# Save solution and time series to file
U = extract_solution(F, S, M)
if save_solution:
_save_solution(U, files)
write_primal_data(U, t1, primal_series)
# Move to next time step
F.update(t1)
S.update()
M.update(t1)
# Update time step counter
timestep_counter += 1
# FIXME: This should be done automatically by the solver
F.update_extra()
# Check if we have reached the end time
if at_end:
info("")
info_green("Finished time-stepping")
save_dofs(num_dofs_FSM, timestep_counter, parameters)
end()
break
# Use constant time step
if uniform_timestep:
t0 = t1
t1 = min(t1 + dt, T)
dt = t1 - t0
at_end = abs(t1 - T) / T < 100.0 * DOLFIN_EPS
# Compute new adaptive time step
else:
Rk = compute_time_residual(primal_series, dual_series, t0, t1,
problem, parameters)
(dt, at_end) = compute_time_step(problem, Rk, TOL, dt, t1, T,
w_k, parameters)
t0 = t1
t1 = t1 + dt
#End of Time loop
#Call post processing for the Newton Solver if necessary.
if parameters["primal_solver"] == "Newton":
fsinewtonsolver.post_processing()
# Save final value of goal functional
save_goal_functional_final(goal_functional, integrated_goal_functional,
reference_value, parameters)
# Report elapsed time
info_blue("Primal solution computed in %g seconds." %
(python_time() - cpu_time))
info("")
# Return solution
info(timings.report_str())
return (goal_functional, integrated_goal_functional)
#--- Fluid problem BC---
def fluid_velocity_initial_condition(self):
#return (0.0,)*spatial_dimension
return (0.0, 0.0, 0.0)
def fluid_pressure_initial_condition(self):
return (0.0)
def fluid_pressure_dirichlet_boundaries(self):
return ["GammaFSI"]
def fluid_pressure_dirichlet_values(self):
return [self.P_Fwave]
def fluid_donothing_boundaries(self):
return [LEFTINFLOW,RIGHTINFLOW]
def structure_dirichlet_values(self):
return [(0,0,0),(0,0,0)]
def structure_dirichlet_boundaries(self):
return [LEFTSTRUC,RIGHTSTRUC]
# Define and solve problem
if __name__ == "__main__":
problem = BloodVessel3D()
solver = FSINewtonSolver(problem,application_parameters["FSINewtonSolver"].to_dict())
solver.solve()
interactive()
def solve_primal(self,problem, parameters):
"Solve primal FSI problem"
#def __init__()
# Get parameters
T = problem.end_time()
dt = initial_timestep(problem, parameters)
TOL = parameters["tolerance"]
w_k = parameters["w_k"]
w_c = parameters["w_c"]
save_solution = parameters["save_solution"]
uniform_timestep = parameters["uniform_timestep"]
plot_solution = parameters["plot_solution"]
# Create files for saving to VTK
level = refinement_level()
if save_solution:
files = (File("%s/pvd/level_%d/u_F.pvd" % (parameters["output_directory"], level)),
File("%s/pvd/level_%d/p_F.pvd" % (parameters["output_directory"], level)),
File("%s/pvd/level_%d/U_S.pvd" % (parameters["output_directory"], level)),
File("%s/pvd/level_%d/P_S.pvd" % (parameters["output_directory"], level)),
File("%s/pvd/level_%d/U_M.pvd" % (parameters["output_directory"], level)))
# Create time series for storing solution
primal_series = create_primal_series(parameters)
# Create time series for dual solution
if level > 0:
dual_series = create_dual_series(parameters)
else:
dual_series = None
# Record CPU time
cpu_time = python_time()
# Record number of time steps
timestep_counter = 0
# Update of user problem at t = 0 (important for initial conditions)
problem.update(0.0, 0.0, dt)
# Define the three subproblems
F = FluidProblem(problem, solver_type=parameters["fluid_solver"])
S = StructureProblem(problem, parameters)
M = MeshProblem(problem, parameters)
# Get solution values
u_F0, u_F1, p_F0, p_F1 = F.solution_values()
U_M0, U_M1 = M.solution_values()
# Extract number of dofs
num_dofs_FSM = extract_num_dofs(F, S, M)
info("FSI problem has %d dofs (%d + %d + %d)" % \
(num_dofs_FSM, F.num_dofs, S.num_dofs, M.num_dofs))
# Get initial structure displacement (used for plotting and checking convergence)
structure_element_degree = parameters["structure_element_degree"]
V_S = VectorFunctionSpace(problem.structure_mesh(), "CG", structure_element_degree)
U_S0 = Function(V_S)
# Save initial solution to file and series
U = extract_solution(F, S, M)
if save_solution:
_save_solution(U, files)
write_primal_data(U, 0, primal_series)
# Initialize adaptive data
init_adaptive_data(problem, parameters)
# Initialize time-stepping
t0 = 0.0
t1 = dt
at_end = abs(t1 - T) / T < 100.0*DOLFIN_EPS
# Initialize integration of goal functional (assuming M(u) = 0 at t = 0)
integrated_goal_functional = 0.0
old_goal_functional = 0.0
# Get reference value of goal functional
if hasattr(problem, "reference_value"):
reference_value = problem.reference_value()
else:
reference_value = None
if parameters["primal_solver"] == "Newton":
#If no initial_step function try to generate one
if not hasattr(problem,"initial_step"):
problem.initial_step = lambda :parameters["initial_timestep"]
# Initialize an FSINewtonSolver Object
fsinewtonsolver = FSINewtonSolver(problem,\
params = parameters["FSINewtonSolver"].to_dict())
#initialize the solve settings
fsinewtonsolver.prepare_solve()
#def solve_primal()
while True:
# Display progress
info("")
info("-"*80)
begin("* Starting new time step")
info_blue(" * t = %g (T = %g, dt = %g)" % (t1, T, dt))
# Update of user problem
problem.update(t0, t1, dt)
# Compute tolerance for FSI iterations
itertol = compute_itertol(problem, w_c, TOL, dt, t1, parameters)
if parameters["primal_solver"] == "Newton":
#Newtonsolver has it's own timings
assert save_solution,"Parameter save_solution must be true to use the Newton Solver"
U_S1,U_S0,P_S1,increment,numiter = newton_solve(F,S,M,U_S0,dt,parameters,itertol,problem,fsinewtonsolver)
elif parameters["primal_solver"] == "fixpoint":
timings.startnext("FixpointSolve")
U_S0,U_S1,P_S1,increment,numiter = fixpoint_solve(F,S,U_S0,M,dt,t1,parameters,itertol,problem)
timings.stop("FixpointSolve")
else:
raise Exception("Only 'fixpoint' and 'Newton' are possible values \
for the parameter 'primal_solver'")
self.g_numiter = numiter
#####################################################
#The primal solve worked so now go to post processing
#####################################################
#def postprocessing():
# Plot solution
if plot_solution:
_plot_solution(u_F1, p_F1, U_S0, U_M1)
if problem.exact_solution() is not None:
update_exactsol(u_F1,p_F1,U_S1,U_M1,F,problem,t1)
info("")
info_green("Increment = %g (tolerance = %g), converged after %d iterations" % (increment, itertol, numiter + 1))
info("")
end()
# Saving number of FSI iterations
save_no_FSI_iter(t1, numiter + 1, parameters)
# Evaluate user goal functional
goal_functional = assemble(problem.evaluate_functional(u_F1, p_F1, U_S1, P_S1, U_M1, dx, dx, dx))
# Integrate goal functional
integrated_goal_functional += 0.5 * dt * (old_goal_functional + goal_functional)
old_goal_functional = goal_functional
# Save goal functional
save_goal_functional(t1, goal_functional, integrated_goal_functional, parameters)
# Save solution and time series to file
U = extract_solution(F, S, M)
if save_solution:
_save_solution(U, files)
write_primal_data(U, t1, primal_series)
# Move to next time step
F.update(t1)
S.update()
M.update(t1)
# Update time step counter
timestep_counter += 1
# FIXME: This should be done automatically by the solver
F.update_extra()
# Check if we have reached the end time
if at_end:
info("")
info_green("Finished time-stepping")
save_dofs(num_dofs_FSM, timestep_counter, parameters)
end()
break
# Use constant time step
if uniform_timestep:
t0 = t1
t1 = min(t1 + dt, T)
dt = t1 - t0
at_end = abs(t1 - T) / T < 100.0*DOLFIN_EPS
# Compute new adaptive time step
else:
Rk = compute_time_residual(primal_series, dual_series, t0, t1, problem, parameters)
(dt, at_end) = compute_time_step(problem, Rk, TOL, dt, t1, T, w_k, parameters)
t0 = t1
t1 = t1 + dt
#End of Time loop
#Call post processing for the Newton Solver if necessary.
if parameters["primal_solver"] == "Newton":
fsinewtonsolver.post_processing()
# Save final value of goal functional
save_goal_functional_final(goal_functional, integrated_goal_functional, reference_value, parameters)
# Report elapsed time
info_blue("Primal solution computed in %g seconds." % (python_time() - cpu_time))
info("")
# Return solution
info(timings.report_str())
return (goal_functional, integrated_goal_functional)