def set_integrators(self):
"""
Generate continuous time high-precision integrators.
"""
# Set CasADi variables
x = ca.MX.sym('x', 4)
u = ca.MX.sym('u', 1)
# Integration method - integrator options an be adjusted
options = {
"abstol": 1e-5,
"reltol": 1e-9,
"max_num_steps": 100,
"tf": self.dt
}
# Create linear dynamics integrator
dae = {'x': x, 'ode': self.model(x, u), 'p': ca.vertcat(u)}
self.Integrator_lin = ca.integrator('integrator_lin', 'cvodes', dae,
options)
# Create nonlinear dynamics integrator
dae_nl = {'x': x, 'ode': self.model_nl(x, u), 'p': ca.vertcat(u)}
self.Integrator = ca.integrator('integrator', 'cvodes', dae_nl,
options)
def __prepare_dynamics(self, nlp):
"""
Builds CasaDI dynamics function.
:param dynamics_func: A selected method handler of the class dynamics.Dynamics.
:param ode_solver: Name of chosen ode, available in OdeSolver enum class.
"""
dynamics = nlp["dynamics_func"]
ode_opt = {"t0": 0, "tf": nlp["dt"]}
if nlp["ode_solver"] == OdeSolver.RK or nlp[
"ode_solver"] == OdeSolver.COLLOCATION:
ode_opt["number_of_finite_elements"] = 5
ode = {
"x": nlp["x"],
"p": nlp["u"],
"ode": dynamics(nlp["x"], nlp["u"])
}
nlp["dynamics"] = []
nlp["par_dynamics"] = {}
if nlp["ode_solver"] == OdeSolver.RK:
ode_opt["idx"] = 0
ode["ode"] = dynamics
if "external_forces" in nlp:
for idx in range(len(nlp["external_forces"])):
ode_opt["idx"] = idx
nlp["dynamics"].append(RK4(ode, ode_opt))
else:
nlp["dynamics"].append(RK4(ode, ode_opt))
elif nlp["ode_solver"] == OdeSolver.COLLOCATION:
if isinstance(nlp["tf"], casadi.MX):
raise RuntimeError(
"OdeSolver.COLLOCATION cannot be used while optimizing the time parameter"
)
if "external_forces" in nlp:
raise RuntimeError(
"COLLOCATION cannot be used with external_forces")
nlp["dynamics"].append(
casadi.integrator("integrator", "collocation", ode, ode_opt))
elif nlp["ode_solver"] == OdeSolver.CVODES:
if isinstance(nlp["tf"], casadi.MX):
raise RuntimeError(
"OdeSolver.CVODES cannot be used while optimizing the time parameter"
)
if "external_forces" in nlp:
raise RuntimeError(
"CVODES cannot be used with external_forces")
nlp["dynamics"].append(
casadi.integrator("integrator", "cvodes", ode, ode_opt))
if len(nlp["dynamics"]) == 1:
if self.nb_threads > 1:
nlp["par_dynamics"] = nlp["dynamics"][0].map(
nlp["ns"], "thread", self.nb_threads)
nlp["dynamics"] = nlp["dynamics"] * nlp["ns"]
def simulate(x0: State, f_control, p: Parameters, t0: float, tf: float,
dt: float):
"""
Simulate the aircraft for a given control function and initial state.
Parameters:
x0: initial state (see State)
f_control: A function of the form f(t, x), which returns the control u
p: Aircraft parameters
t0: initial time
tf: fintal time
dt: The discrete sampling time of the controller.
"""
xs = ca.MX.sym('x', 16)
x = State.from_casadi(xs)
us = ca.MX.sym('u', 4)
u = Control.from_casadi(us)
dae = {'x': xs, 'p': us, 'ode': dynamics(x, u, p).to_casadi()}
F = ca.integrator('F', 'idas', dae, {'t0': 0, 'tf': dt, 'jit': True})
x = np.array(x0.to_casadi()).reshape(-1)
u0 = f_control(t0, x0)
u = np.array(u0.to_casadi()).reshape(-1)
data = {'t': [0], 'x': [x]}
t_vect = np.arange(t0, tf, dt)
for t in t_vect:
u0 = f_control(t, x)
u = np.array(u0.to_casadi()).reshape(-1)
x = np.array(F(x0=x, p=u)['xf']).reshape(-1)
data['t'].append(t)
data['x'].append(x)
for k in data.keys():
data[k] = np.array(data[k])
return data
def calc_xs_full_ode(Ex, Ey, e_hat, y_hat, state_compressor):
t = cs.SX.sym('t', 1)
x_sym = cs.SX.sym('x', sc.nm)
y_sym = cs.SX.sym('y', ny)
e_sym = cs.SX.sym('e', sc.nr)
Ex_sym = cs.SX.sym('Ex', sc.nr, sc.nm)
Ey_sym = cs.SX.sym('Ex', sc.nr, Ey.shape[1])
v = e_sym * v_star * (1 + Ex_sym @ cs.log(x_sym / sc.x_star) +
Ey @ np.log(y_hat))
v_fun = cs.Function('v', [x_sym, e_sym, Ex_sym], [v])
ode = cs.mtimes(cs.DM(N), v_fun(x_sym, e_sym, Ex_sym))
integrator = cs.integrator(
'full', 'cvodes', {
't': t,
'x': x_sym,
'p': cs.vertcat(e_sym, Ex_sym.reshape((-1, 1))),
'ode': ode,
}, {
'tf': 2000,
'regularity_check': True,
})
p = np.hstack([e_hat, Ex.reshape((-1, 1), order='F').squeeze()])
xs = np.array(integrator(x0=sc.x_star, p=p)['xf']).flatten()
return xs
def test_parallelization():
N = 300
x = cd.MX.sym('x'); z = cd.MX.sym('z'); p = cd.MX.sym('p')
dae = {'x': x, 'z': z, 'p': p, 'ode': 0, 'alg': z}
func = cd.integrator('func', 'idas', dae)
F = func.map(N, 'openmp')
F(x0=0, z0=0, p=0)
def solve_ode(self, ts=None):
""" Solve the ODE using casadi's CVODES wrapper to ensure that the
collocated dynamics match the error-controlled dynamics of the ODE
"""
if ts is None:
ts = self.ts
check_err = True
else:
check_err = False
ts.sort() # Assert ts is increasing
integrator = cs.integrator('int', 'cvodes', self._model_dict, {
'grid': ts,
'output_t0': True,
})
x_sim = np.array(integrator(x0=self.sol[0], p=self.var.p_op)['xf']).T
if check_err:
err = ((self.sol - x_sim).mean(0) / (self.sol.mean(0))).mean()
if err > 1E-3:
warn('Collocation does not match ODE Solution: '
'{:.2%} Error'.format(err))
return x_sim
def _simulate_with_casadi_no_inputs(self, initcon, tsim, integrator,
integrator_options):
# Old way (10 times faster, but can't incorporate time
# varying parameters/controls)
xalltemp = [self._templatemap[i] for i in self._diffvars]
xall = casadi.vertcat(*xalltemp)
odealltemp = [convert_pyomo2casadi(self._rhsdict[i])
for i in self._derivlist]
odeall = casadi.vertcat(*odealltemp)
dae = {'x': xall, 'ode': odeall}
if len(self._algvars) != 0:
zalltemp = [self._templatemap[i] for i in self._simalgvars]
zall = casadi.vertcat(*zalltemp)
algalltemp = [convert_pyomo2casadi(i) for i in self._alglist]
algall = casadi.vertcat(*algalltemp)
dae['z'] = zall
dae['alg'] = algall
integrator_options['grid'] = tsim
integrator_options['output_t0'] = True
F = casadi.integrator('F', integrator, dae, integrator_options)
sol = F(x0=initcon)
profile = sol['xf'].full().T
if len(self._algvars) != 0:
algprofile = sol['zf'].full().T
profile = np.concatenate((profile, algprofile), axis=1)
return [tsim, profile]
def dynamics(x, u, data):
""" System dynamics function (discrete time)
"""
# state derivative expression
xdot = ca.vertcat(
u['Vdot'] * (data['cA0'] - x['cA']) -
arrhenius(x, u, data, 1) * x['cA'] -
arrhenius(x, u, data, 3) * x['cA'] * x['cA'],
-u['Vdot'] * x['cB'] + arrhenius(x, u, data, 1) * x['cA'] -
arrhenius(x, u, data, 2) * x['cB'], u['Vdot'] *
(data['theta0'] - x['theta']) - 1.0 / (data['rho'] * data['Cp']) *
(arrhenius(x, u, data, 1) * x['cA'] * data['DH_AB'] +
arrhenius(x, u, data, 2) * x['cB'] * data['DH_BC'] +
arrhenius(x, u, data, 3) * x['cA'] * x['cA'] * data['DH_AD']) +
data['kw'] * data['AR'] / (data['rho'] * data['Cp'] * data['VR']) *
(x['thetaK'] - x['theta']), 1.0 / (data['mK'] * data['CPK']) *
(u['QdotK'] + data['kw'] * data['AR'] * (x['theta'] - x['thetaK'])))
# create ode for integrator
ode = {'x': x, 'p': u, 'ode': xdot / 3600}
return ca.integrator('F', data['integrator'], ode, {
'tf': data['ts'],
'number_of_finite_elements': data['num_steps']
})
def _create_integrator(self, options=None, integrator_type='implicit'):
"""
Create casadi.integrator for the DAESystem.
:param dict options: casadi.integrator options
:param str integrator_type: integrator type, options available are: 'cvodes', 'idas',
'implicit' (default, auto-select between 'idas' and 'cvodes'), 'rk', and 'collocation'.
:return:
"""
if options is None:
options = {}
# Integrator Function name
if 'name' in options:
name = options.pop('name')
else:
name = 'integrator'
# Load default options from the config file, if a 'options' dict was passed use that to override the default.
for k in config.INTEGRATOR_OPTIONS:
if k not in options:
options[k] = config.INTEGRATOR_OPTIONS[k]
# For backwards compatibility, previously option 'explicit' was a custom Runge-Kutta. CasADi now has it built-in
if integrator_type == 'explicit':
integrator_type = 'rk'
# Return the specified integrator
if integrator_type == 'implicit' and self.is_ode:
return integrator(name, "cvodes", self.dae_system_dict, options)
if integrator_type == 'implicit' and self.is_dae:
return integrator(name, "idas", self.dae_system_dict, options)
if integrator_type == 'rk4':
if self.is_ode:
return self._create_explicit_integrator(
'explicit_integrator', 'rk4', self.dae_system_dict,
options)
else:
raise Exception(
'Explicit integrator not implemented for DAE systems')
if integrator_type in ['rk', 'collocation', 'cvodes', 'idas']:
return integrator(name, integrator_type, self.dae_system_dict,
options)
raise ValueError(
"'integrator_type'={} not available. Options available are: 'cvodes', 'idas', implicit "
"(default, auto-select between 'idas' and 'cvodes'), 'rk',"
" and 'collocation'.".format(integrator_type))
def __init__(self, params):
self.model = KinematicBicycleCar(N=params["N"], step=params["step"])
self.sys = self.model.getDae()
self.cost = 0
self.Uk_prev = None
self.indices_to_stop = None
self.indices_to_start = None
# hack
simparams = {
'x': self.sys.x[0],
'p': self.sys.u[0],
'ode': self.sys.ode[0]
}
self.sim = ca.integrator('F', 'idas', simparams, {
't0': 0,
'tf': self.model.step
})
# Set up collocation (from direct_collocation example)
# Degree of interpolating polynomial
self._d = 3
# Get collocation points
tau_root = np.append(0, ca.collocation_points(self._d, 'legendre'))
# Coefficients of the collocation equation
self._C = np.zeros((self._d + 1, self._d + 1))
# Coefficients of the continuity equation
self._D = np.zeros(self._d + 1)
# Coefficients of the quadrature function
self._B = np.zeros(self._d + 1)
# Construct polynomial basis
for j in range(self._d + 1):
# Construct Lagrange polynomials to get the polynomial basis at the collocation point
p = np.poly1d([1])
for r in range(self._d + 1):
if r != j:
p *= np.poly1d([1, -tau_root[r]
]) / (tau_root[j] - tau_root[r])
# Evaluate the polynomial at the final time to get the coefficients of the continuity equation
self._D[j] = p(1.0)
# Evaluate the time derivative of the polynomial at all collocation points to get the coefficients of the continuity equation
pder = np.polyder(p)
for r in range(self._d + 1):
self._C[j, r] = pder(tau_root[r])
# Evaluate the integral of the polynomial to get the coefficients of the quadrature function
pint = np.polyint(p)
self._B[j] = pint(1.0)
def create_test_data(model, x_labels):
ts = np.linspace(0, 100, 100)
opts = {'grid': ts, 'output_t0': True}
integrator = cs.integrator('integrator', 'cvodes', model, opts)
xf = np.asarray(integrator(x0=[0., 0., 1.], p=[0.4, 0.05, 0.1])['xf']).T
xf_noise = xf * (1 + .1 * np.random.randn(*xf.shape))
return pd.DataFrame(xf_noise, index=ts, columns=x_labels)
def _initialize_ekf_for_arrival_cost_update(self):
self.hfcn = ca.Function("h", [self.x, self.c], [self.h])
self.H = self.hfcn.jac()
ode = {"x": self.x, "p": ca.veccat(self.c, self.u, self.b, self.w), \
"ode": self.f}
self.phi = ca.integrator("integrator", "cvodes", ode, \
{"t0": 0.0, "tf": self._timing.dt_day})
self.Phi = self.phi.jac()
def _initialize_polynomial_coefs(self):
""" Setup radau polynomials and initialize the weight factor matricies
"""
self.col_vars['tau_root'] = [0] + cs.collocation_points(
self.d, "radau")
# Dimensionless time inside one control interval
tau = cs.SX.sym("tau")
# For all collocation points
L = [[]] * (self.d + 1)
for j in range(self.d + 1):
# Construct Lagrange polynomials to get the polynomial basis at the
# collocation point
L[j] = 1
for r in range(self.d + 1):
if r != j:
L[j] *= ((tau - self.col_vars['tau_root'][r]) /
(self.col_vars['tau_root'][j] -
self.col_vars['tau_root'][r]))
self.col_vars['lfcn'] = lfcn = cs.Function('lfcn', [tau],
[cs.vertcat(*L)])
# Evaluate the polynomial at the final time to get the coefficients of
# the continuity equation
# Coefficients of the continuity equation
self.col_vars['D'] = np.asarray(lfcn(1.0)).squeeze()
# Evaluate the time derivative of the polynomial at all collocation
# points to get the coefficients of the continuity equation
tfcn = lfcn.tangent()
# Coefficients of the collocation equation
self.col_vars['C'] = np.zeros((self.d + 1, self.d + 1))
for r in range(self.d + 1):
self.col_vars['C'][:, r] = np.asarray(
tfcn(self.col_vars['tau_root'][r])[0]).squeeze()
# Find weights for gaussian quadrature: approximate int_0^1 f(x) by
# Sum(
xtau = cs.SX.sym("xtau")
Phi = [[]] * (self.d + 1)
for j in range(self.d + 1):
dae = dict(t=tau, x=xtau, ode=L[j])
tau_integrator = cs.integrator("integrator", "cvodes", dae, {
't0': 0.,
'tf': 1
})
Phi[j] = np.asarray(tau_integrator(x0=0)['xf'])
self.col_vars['Phi'] = np.array(Phi)
def createTimeDiscreteFun(ode, stepSize, NX, NU, integratorType='rk'):
x = ca.SX.sym('x', NX)
u = ca.SX.sym('u', NU)
modelProps = {'x': x, 'p': u, 'ode': ode(x, u)}
if integratorType == 'rk':
return ca.Function('intg', [x, u], [rk4step(ode, x, u, stepSize)])
else:
return lambda x0, u: ca.integrator('intg', integratorType,
modelProps, {'tf': stepSize})(
x0=x0, p=u)['xf']
def dynamics(x, u, data):
""" System dynamics function (discrete time)
"""
# state derivative expression
xdot = ca.vertcat(
(data['F1'] * data['X1'] - data['F2'] * x['X2']) / data['M'],
(data['F4'] - data['F5']) / data['C'])
# create ode for integrator
ode = {'x': x, 'p': u, 'ode': xdot}
return [ca.integrator('F', 'collocation', ode, {'tf': 1}), ode]
def intg_builtin(self, f, X, U, P, Z):
# A single CVODES step
DT = MX.sym("DT")
t = MX.sym("t")
t0 = MX.sym("t0")
res = f(x=X, u=U, p=P, t=t0+t*DT, z=Z)
data = {'x': X, 'p': vertcat(U, DT, P, t0), 'z': Z, 't': t, 'ode': DT * res["ode"], 'quad': DT * res["quad"], 'alg': res["alg"]}
options = dict(self.intg_options)
if self.intg in ["collocation"]:
options["number_of_finite_elements"] = 1
I = integrator('intg_cvodes', self.intg, data, options)
res = I.call({'x0': X, 'p': vertcat(U, DT, P, t0)})
return Function('F', [X, U, t0, DT, P], [res["xf"], MX(), res["qf"]], ['x0', 'u', 't0', 'DT', 'p'], ['xf', 'poly_coeff','qf'])
def _setup_simulator(self):
self._setup_model()
dt = ca.MX.sym("dt")
ode = {"x": self.x, "p": ca.veccat(dt, self.c, self.u, self.b, self.w), \
"ode": dt * self.f}
self._integrator = ca.integrator("integrator", "cvodes", ode, \
{"t0": 0.0, "tf": 1.0})
self._remove_unserializable_attributes()
def _initialize_polynomial_coefs(self):
""" Setup radau polynomials and initialize the weight factor matricies
"""
self.col_vars['tau_root'] = [0] + cs.collocation_points(self.d, "radau")
# Dimensionless time inside one control interval
tau = cs.SX.sym("tau")
# For all collocation points
L = [[]]*(self.d+1)
for j in range(self.d+1):
# Construct Lagrange polynomials to get the polynomial basis at the
# collocation point
L[j] = 1
for r in range(self.d+1):
if r != j:
L[j] *= (
(tau - self.col_vars['tau_root'][r]) /
(self.col_vars['tau_root'][j] -
self.col_vars['tau_root'][r]))
self.col_vars['lfcn'] = lfcn = cs.Function(
'lfcn', [tau], [cs.vertcat(*L)])
# Evaluate the polynomial at the final time to get the coefficients of
# the continuity equation
# Coefficients of the continuity equation
self.col_vars['D'] = np.asarray(lfcn(1.0)).squeeze()
# Evaluate the time derivative of the polynomial at all collocation
# points to get the coefficients of the continuity equation
tfcn = lfcn.tangent()
# Coefficients of the collocation equation
self.col_vars['C'] = np.zeros((self.d+1, self.d+1))
for r in range(self.d+1):
self.col_vars['C'][:,r] = np.asarray(tfcn(self.col_vars['tau_root'][r])[0]).squeeze()
# Find weights for gaussian quadrature: approximate int_0^1 f(x) by
# Sum(
xtau = cs.SX.sym("xtau")
Phi = [[]] * (self.d+1)
for j in range(self.d+1):
dae = dict(t=tau, x=xtau, ode=L[j])
tau_integrator = cs.integrator(
"integrator", "cvodes", dae, {'t0':0., 'tf':1})
Phi[j] = np.asarray(tau_integrator(x0=0)['xf'])
self.col_vars['Phi'] = np.array(Phi)
def get_integrator(self, model, t_eval, inputs):
# Only set up problem once
if model not in self.problems:
y0 = model.y0
rhs = model.casadi_rhs
algebraic = model.casadi_algebraic
# When not in DEBUG mode (level=10), suppress warnings from CasADi
if (pybamm.logger.getEffectiveLevel() == 10
or pybamm.settings.debug_mode is True):
show_eval_warnings = True
else:
show_eval_warnings = False
options = {
**self.extra_options_setup,
"grid": t_eval,
"reltol": self.rtol,
"abstol": self.atol,
"output_t0": True,
"show_eval_warnings": show_eval_warnings,
}
# set up and solve
t = casadi.MX.sym("t")
p = casadi.MX.sym("p", inputs.shape[0])
y_diff = casadi.MX.sym("y_diff", rhs(t_eval[0], y0, p).shape[0])
problem = {"t": t, "x": y_diff, "p": p}
if algebraic(t_eval[0], y0, p).is_empty():
method = "cvodes"
problem.update({"ode": rhs(t, y_diff, p)})
else:
options["calc_ic"] = True
method = "idas"
y_alg = casadi.MX.sym("y_alg",
algebraic(t_eval[0], y0, p).shape[0])
y_full = casadi.vertcat(y_diff, y_alg)
problem.update({
"z": y_alg,
"ode": rhs(t, y_full, p),
"alg": algebraic(t, y_full, p),
})
self.problems[model] = problem
self.options[model] = options
self.methods[model] = method
else:
# problem stays the same
# just update options
self.options[model]["grid"] = t_eval
return casadi.integrator("F", self.methods[model],
self.problems[model], self.options[model])
def __prepare_dynamics(self, nlp):
"""
Builds CasaDI dynamics function.
:param dynamics_func: A selected method handler of the class dynamics.Dynamics.
:param ode_solver: Name of chosen ode, available in OdeSolver enum class.
"""
dynamics = casadi.Function(
"ForwardDyn",
[self.symbolic_states, self.symbolic_controls],
[
nlp["dynamics_func"](self.symbolic_states,
self.symbolic_controls, nlp)
],
["x", "u"],
["xdot"],
).expand() # .map(nlp["ns"], "thread", 2)
ode = {
"x": nlp["x"],
"p": nlp["u"],
"ode": dynamics(nlp["x"], nlp["u"])
}
ode_opt = {"t0": 0, "tf": nlp["dt"]}
if nlp["ode_solver"] == OdeSolver.RK or nlp[
"ode_solver"] == OdeSolver.COLLOCATION:
ode_opt["number_of_finite_elements"] = 5
if nlp["ode_solver"] == OdeSolver.RK:
nlp["dynamics"] = casadi.integrator("integrator", "rk", ode,
ode_opt)
elif nlp["ode_solver"] == OdeSolver.COLLOCATION:
nlp["dynamics"] = casadi.integrator("integrator", "collocation",
ode, ode_opt)
elif nlp["ode_solver"] == OdeSolver.CVODES:
nlp["dynamics"] = casadi.integrator("integrator", "cvodes", ode,
ode_opt)
def arclength(self, s):
if s == 0:
return 0.0
length = cas.integrator(
'integrator', 'rk', {
'x': cas.MX.sym('null'),
't': self._s,
'ode': 0,
'quad': cas.norm_2(cas.jacobian(self._expr, self._s))
}, {
't0': 0.0,
'tf': s
}).call({})['qf']
return length
def set_integrators_augmented(self):
"""
Generate continuous time high-precision integrators.
"""
# Set CasADi variables
u = ca.MX.sym('u', 4)
options = {"abstol" : 1e-5, "reltol" : 1e-9, "max_num_steps": 100,
"tf" : self.dt}
# Create augmented system dynamics integrator
x_ag = ca.MX.sym('x', 15)
dae = {'x': x_ag, 'ode': self.model_nl_ag(x_ag,u), 'p':ca.vertcat(u)}
self.Integrator_nl_ag = ca.integrator('integrator', 'cvodes', dae, options)
print("Augmented integraters are set perfectly !")
def run_reaction(self,species_dict,reactions,t_i=0,t_f=20,t_step=0.1):
# ODE and Bounds
t= np.arange(t_i,t_f,t_step)
ode = {'x':vertcat(*[v['sx'] for v in species_dict.values()]),
'ode':reactions}
# Solving
opts = {'grid':t, 'output_t0':True}
F = cas.integrator('F','cvodes',ode,opts)
results = F(x0=[v['Ci'] for v in species_dict.values()])
# Clean results
dfresults = pd.DataFrame(np.array(results['xf']),index=species_dict.keys()).T.set_index(t)
return dfresults, results
def dynamics(x, u, data, h=1.0):
""" System dynamics formulation (discrete time)
"""
# state derivative
xdot = ca.vertcat(
data['v'] * x['ez'], data['v'] * x['ey'], -u['u'] * x['ey'] -
data['rho'] * x['ez'] * (x['ez']**2 + x['ey']**2 - 1.0),
u['u'] * x['ez'] - data['rho'] * x['ey'] *
(x['ez']**2 + x['ey']**2 - 1.0))
# set-up ode system
f = ca.Function('f', [x, u], [xdot])
ode = {'x': x, 'p': u, 'ode': f(x, u)}
return ca.integrator('F', 'rk', ode, {
'tf': h,
'number_of_finite_elements': 50
})
def simulate(x0, u0, t0, tf, dt):
xs = ca.MX.sym('x', 13)
x = f16.State.from_casadi(xs)
us = ca.MX.sym('u', 4)
u = f16.Control.from_casadi(us)
dae = {'x': xs, 'p': us, 'ode': f16.dynamics(x, u, p).to_casadi()}
F = ca.integrator('F', 'idas', dae, {'t0': 0, 'tf': dt, 'jit': True})
x = np.array(x0.to_casadi()).reshape(-1)
u = np.array(u0.to_casadi()).reshape(-1)
data = {'t': [0], 'x': [x]}
t_vect = np.arange(t0, tf, dt)
for t in t_vect:
x = np.array(F(x0=x, p=u)['xf']).reshape(-1)
data['t'].append(t)
data['x'].append(x)
for k in data.keys():
data[k] = np.array(data[k])
return data
def integrator(self, ocp, nlp) -> list:
"""
The interface of the OdeSolver to the corresponding integrator
Parameters
----------
ocp: OptimalControlProgram
A reference to the ocp
nlp: NonLinearProgram
A reference to the nlp
Returns
-------
A list of integrators
"""
if not isinstance(ocp.cx(), casadi.MX):
raise RuntimeError(
"CVODES integrator can only be used with MX graphs")
if len(ocp.v.params.size) != 0:
raise RuntimeError(
"CVODES cannot be used while optimizing parameters")
if nlp.external_forces:
raise RuntimeError(
"CVODES cannot be used with external_forces")
if nlp.control_type == ControlType.LINEAR_CONTINUOUS:
raise RuntimeError(
"CVODES cannot be used with piece-wise linear controls (only RK4)"
)
if not isinstance(nlp.ode_solver, OdeSolver.RK4):
raise RuntimeError("CVODES is only implemented with RK4")
ode = {
"x": nlp.x,
"p": nlp.u,
"ode": nlp.dynamics_func(nlp.x, nlp.u, nlp.p)
}
ode_opt = {
"t0": 0,
"tf": nlp.dt,
"number_of_finite_elements": nlp.ode_solver.steps
}
return [casadi.integrator("integrator", "cvodes", ode, ode_opt)]
def get_integrator(self, model, t_eval, inputs):
# Only set up problem once
if model not in self.problems:
y0 = model.y0
rhs = model.casadi_rhs
algebraic = model.casadi_algebraic
u_stacked = casadi.vertcat(*[x for x in inputs.values()])
options = {
"grid": t_eval,
"reltol": self.rtol,
"abstol": self.atol,
"output_t0": True,
"max_num_steps": self.max_steps,
}
# set up and solve
t = casadi.MX.sym("t")
u = casadi.MX.sym("u", u_stacked.shape[0])
y_diff = casadi.MX.sym("y_diff", rhs(t_eval[0], y0, u).shape[0])
problem = {"t": t, "x": y_diff, "p": u}
if algebraic(t_eval[0], y0, u).is_empty():
method = "cvodes"
problem.update({"ode": rhs(t, y_diff, u)})
else:
options["calc_ic"] = True
method = "idas"
y_alg = casadi.MX.sym("y_alg",
algebraic(t_eval[0], y0, u).shape[0])
y_full = casadi.vertcat(y_diff, y_alg)
problem.update({
"z": y_alg,
"ode": rhs(t, y_full, u),
"alg": algebraic(t, y_full, u),
})
self.problems[model] = problem
self.options[model] = options
self.methods[model] = method
else:
# problem stays the same
# just update options
self.options[model]["grid"] = t_eval
return casadi.integrator("F", self.methods[model],
self.problems[model], self.options[model])
def setup_integrator(self, integration_method='cvodes', opts=None):
"""Setup casadi integrator."""
#: Generate Options for integration
self.generate_opts(opts)
#: Initialize states of the integrator
self.fin['x0'] = self.dae.x
self.fin['p'] = self.dae.u +\
self.dae.p + self.dae.c
self.fin['z0'] = self.dae.z
self.fin['rx0'] = cas.DM([])
self.fin['rp'] = cas.DM([])
self.fin['rz0'] = cas.DM([])
self.dae.print_dae()
#: Set up the integrator
self.integrator = cas.integrator('pendulum', integration_method,
self.dae.generate_dae(), self.opts)
return self.integrator
def integrate_casadi(self, problem, y0, t_eval, mass_matrix=None):
"""
Solve a DAE model defined by residuals with initial conditions y0.
Parameters
----------
residuals : method
A function that takes in t, y and ydot and returns the residuals of the
equations
y0 : numeric type
The initial conditions
t_eval : numeric type
The times at which to compute the solution
mass_matrix : array_like, optional
The (sparse) mass matrix for the chosen spatial method. This is only passed
to check that the mass matrix is diagonal with 1s for the odes and 0s for
the algebraic equations, as CasADi does not allow to pass mass matrices.
"""
options = {
"grid": t_eval,
"reltol": self.rtol,
"abstol": self.atol,
"output_t0": True,
}
options.update(self.extra_options)
if self.method == "idas":
options["calc_ic"] = True
# set up and solve
integrator = casadi.integrator("F", self.method, problem, options)
try:
# Try solving
len_rhs = problem["x"].size()[0]
y0_diff, y0_alg = np.split(y0, [len_rhs])
sol = integrator(x0=y0_diff, z0=y0_alg)
y_values = np.concatenate([sol["xf"].full(), sol["zf"].full()])
return pybamm.Solution(t_eval, y_values, None, None, "final time")
except RuntimeError as e:
# If it doesn't work raise error
raise pybamm.SolverError(e.args[0])
def expm(a_matrix):
"""Since casadi does not have native support for matrix exponential, this is a trick to computing it.
It can be quite expensive, specially for large matrices.
THIS ONLY SUPPORT NUMERIC MATRICES AND MX VARIABLES, DOES NOT SUPPORT SX SYMBOLIC VARIABLES.
:param DM a_matrix: matrix
:return:
"""
dim = a_matrix.shape[1]
# Create the integrator
x_mx = MX.sym('x', a_matrix.shape[1])
a_mx = MX.sym('x', a_matrix.shape)
ode = mtimes(a_mx, x_mx)
dae_system_dict = {'x': x_mx, 'ode': ode, 'p': vec(a_mx)}
integrator_ = integrator("integrator", "cvodes", dae_system_dict,
{'tf': 1})
integrator_map = integrator_.map(a_matrix.shape[1], 'thread')
res = integrator_map(x0=DM.eye(dim),
p=repmat(vec(a_matrix), (1, a_matrix.shape[1])))['xf']
return res
def __prepare_dynamics(self, nlp):
"""
Builds CasaDI dynamics function.
:param nlp: The nlp problem
"""
ode_opt = {"t0": 0, "tf": nlp["dt"]}
if nlp["ode_solver"] == OdeSolver.COLLOCATION or nlp[
"ode_solver"] == OdeSolver.RK:
ode_opt["number_of_finite_elements"] = nlp["nb_integration_steps"]
dynamics = nlp["dynamics_func"]
ode = {
"x": nlp["x"],
"p": nlp["u"],
"ode": dynamics(nlp["x"], nlp["u"], nlp["p"])
}
nlp["dynamics"] = []
nlp["par_dynamics"] = {}
if nlp["ode_solver"] == OdeSolver.RK:
ode_opt["model"] = nlp["model"]
ode_opt["param"] = nlp["p"]
ode_opt["CX"] = nlp["CX"]
ode_opt["idx"] = 0
ode["ode"] = dynamics
ode_opt["control_type"] = nlp["control_type"]
if "external_forces" in nlp:
for idx in range(len(nlp["external_forces"])):
ode_opt["idx"] = idx
nlp["dynamics"].append(RK4(ode, ode_opt))
else:
if self.nb_threads > 1 and nlp[
"control_type"] == ControlType.LINEAR_CONTINUOUS:
raise RuntimeError(
"Piece-wise linear continuous controls cannot be used with multiple threads"
)
nlp["dynamics"].append(RK4(ode, ode_opt))
elif nlp["ode_solver"] == OdeSolver.COLLOCATION:
if not isinstance(self.CX(), MX):
raise RuntimeError(
"COLLOCATION integrator can only be used with MX graphs")
if len(self.param_to_optimize) != 0:
raise RuntimeError(
"COLLOCATION cannot be used while optimizing parameters")
if "external_forces" in nlp:
raise RuntimeError(
"COLLOCATION cannot be used with external_forces")
if nlp["control_type"] == ControlType.LINEAR_CONTINUOUS:
raise RuntimeError(
"COLLOCATION cannot be used with piece-wise linear controls (only RK4)"
)
nlp["dynamics"].append(
casadi.integrator("integrator", "collocation", ode, ode_opt))
elif nlp["ode_solver"] == OdeSolver.CVODES:
if not isinstance(self.CX(), MX):
raise RuntimeError(
"CVODES integrator can only be used with MX graphs")
if len(self.param_to_optimize) != 0:
raise RuntimeError(
"CVODES cannot be used while optimizing parameters")
if "external_forces" in nlp:
raise RuntimeError(
"CVODES cannot be used with external_forces")
if nlp["control_type"] == ControlType.LINEAR_CONTINUOUS:
raise RuntimeError(
"CVODES cannot be used with piece-wise linear controls (only RK4)"
)
nlp["dynamics"].append(
casadi.integrator("integrator", "cvodes", ode, ode_opt))
if len(nlp["dynamics"]) == 1:
if self.nb_threads > 1:
nlp["par_dynamics"] = nlp["dynamics"][0].map(
nlp["ns"], "thread", self.nb_threads)
nlp["dynamics"] = nlp["dynamics"] * nlp["ns"]
def _simulate_with_casadi_with_inputs(self, initcon, tsim, varying_inputs,
integrator, integrator_options):
xalltemp = [self._templatemap[i] for i in self._diffvars]
xall = casadi.vertcat(*xalltemp)
time = casadi.SX.sym('time')
odealltemp = [time * convert_pyomo2casadi(self._rhsdict[i])
for i in self._derivlist]
odeall = casadi.vertcat(*odealltemp)
# Time-varying inputs
ptemp = [self._templatemap[i]
for i in self._siminputvars.values()]
pall = casadi.vertcat(time, *ptemp)
dae = {'x': xall, 'p': pall, 'ode': odeall}
if len(self._algvars) != 0:
zalltemp = [self._templatemap[i] for i in self._simalgvars]
zall = casadi.vertcat(*zalltemp)
# Need to do anything special with time scaling??
algalltemp = [convert_pyomo2casadi(i) for i in self._alglist]
algall = casadi.vertcat(*algalltemp)
dae['z'] = zall
dae['alg'] = algall
integrator_options['tf'] = 1.0
F = casadi.integrator('F', integrator, dae, integrator_options)
N = len(tsim)
# This approach removes the time scaling from tsim so must
# create an array with the time step between consecutive
# time points
tsimtemp = np.hstack([0, tsim[1:] - tsim[0:-1]])
tsimtemp.shape = (1, len(tsimtemp))
palltemp = [casadi.DM(tsimtemp)]
# Need a similar np array for each time-varying input
for p in self._siminputvars.keys():
profile = varying_inputs[p]
tswitch = list(profile.keys())
tswitch.sort()
tidx = [tsim.searchsorted(i) for i in tswitch] + \
[len(tsim) - 1]
ptemp = [profile[0]] + \
[casadi.repmat(profile[tswitch[i]], 1,
tidx[i + 1] - tidx[i])
for i in range(len(tswitch))]
temp = casadi.horzcat(*ptemp)
palltemp.append(temp)
I = F.mapaccum('simulator', N)
sol = I(x0=initcon, p=casadi.vertcat(*palltemp))
profile = sol['xf'].full().T
if len(self._algvars) != 0:
algprofile = sol['zf'].full().T
profile = np.concatenate((profile, algprofile), axis=1)
return [tsim, profile]