def test_3_2_disp_sobol(self):
"""Iterative sampling on TestFunction 1 and 2 (multi and univariate)"""
def callback_func(x):
print("Local minimization callback test")
for test in [test1_1, test2_1]:
res = shgo(test.f, test.bounds, iters=1, sampling_method='sobol',
callback=callback_func, options={'disp': True})
res = shgo(test.f, test.bounds, n=1, sampling_method='simplicial',
callback=callback_func, options={'disp': True})
def run_test(test, args=(), test_atol=1e-5, n=100, iters=None,
callback=None, minimizer_kwargs=None, options=None,
sampling_method='sobol'):
res = shgo(test.f, test.bounds, args=args, constraints=test.cons,
n=n, iters=iters, callback=callback,
minimizer_kwargs=minimizer_kwargs, options=options,
sampling_method=sampling_method)
logging.info(res)
if test.expected_x is not None:
numpy.testing.assert_allclose(res.x, test.expected_x,
rtol=test_atol,
atol=test_atol)
# (Optional tests)
if test.expected_fun is not None:
numpy.testing.assert_allclose(res.fun,
test.expected_fun,
atol=test_atol)
if test.expected_xl is not None:
numpy.testing.assert_allclose(res.xl,
test.expected_xl,
atol=test_atol)
if test.expected_funl is not None:
numpy.testing.assert_allclose(res.funl,
test.expected_funl,
atol=test_atol)
return
def test_6_2_simplicial_min_iter(self):
"""Test that maximum iteration option works on TestFunction 3"""
options = {'min_iter': 2}
res = shgo(test3_1.f, test3_1.bounds, constraints=test3_1.cons,
options=options, sampling_method='simplicial')
numpy.testing.assert_allclose(res.x, test3_1.expected_x, rtol=1e-5,
atol=1e-5)
numpy.testing.assert_allclose(res.fun, test3_1.expected_fun, atol=1e-5)
def test_3_2_no_min_pool_simplicial(self):
"""Check that the routine stops when no minimiser is found
after maximum specified sampling evaluations"""
options = {'maxev': 10,
'disp': True}
res = shgo(test_table.f, test_table.bounds, n=3, options=options,
sampling_method='simplicial')
numpy.testing.assert_equal(False, res.success)
def test_2_2_sobol_iter(self):
"""Iterative Sobol sampling on TestFunction 2 (univariate)"""
res = shgo(test2_1.f, test2_1.bounds, constraints=test2_1.cons,
n=None, iters=1, sampling_method='sobol')
numpy.testing.assert_allclose(res.x, test2_1.expected_x, rtol=1e-5,
atol=1e-5)
numpy.testing.assert_allclose(res.fun, test2_1.expected_fun, atol=1e-5)
def test_1_maxiter(self):
"""Test failure on insufficient iterations"""
options = {'maxiter': 2}
res = shgo(test4_1.f, test4_1.bounds, n=2, iters=None,
options=options, sampling_method='sobol')
numpy.testing.assert_equal(False, res.success)
numpy.testing.assert_equal(4, res.nfev)
def test_5_2_infeasible_simplicial(self):
"""Ensures the algorithm terminates on infeasible problems
after maxev is exceeded."""
options = {'maxev': 1000,
'disp': False}
res = shgo(test_infeasible.f, test_infeasible.bounds,
constraints=test_infeasible.cons, n=100, options=options,
sampling_method='simplicial')
numpy.testing.assert_equal(False, res.success)
def shgo(self):
from scipy.optimize import shgo
res = shgo(self.error,
self.bounds,
constraints=None,
n=60,
sampling_method='sobol',
iters=30)
self.param = res.x
self.fit = lambda x: func(x, *self.param)
self._measureGoodness()
def optima_clement1a(i,oldfolder,training_master,ytrue,\
theshape,iniclemz,Nop,iniclemb,clfx,clfy,nclus,minnss,maxss):
import numpy as np
print('%d|%d'%((i+1),Nop))
yuse=np.reshape(ytrue[i,:],(1,-1) ,'F')
#initial_theta = np.reshape(iniclemz,(1,-1),'F')
initial_theta=np.reshape(iniclemz[i,:],(1,-1),'F')
iniclem=np.reshape(iniclemb[i,:],(1,-1),'F')
bnds=[(np.asscalar(minnss[:,0]), np.asscalar(maxss[:,0])), (np.asscalar(minnss[:,1]), np.asscalar(maxss[:,1]))]
resultt = opt.shgo(func=costFunc1,bounds=bnds, \
args=(yuse,clfx,clfy,theshape,iniclem,nclus),n=100, iters=5)
Xe=np.reshape(resultt.x,(1,-1),'F')
return Xe
def test_5_1_1_infeasible_sobol(self):
"""Ensures the algorithm terminates on infeasible problems
after maxev is exceeded. Use infty constraints option"""
options = {'maxev': 100, 'disp': True}
res = shgo(test_infeasible.f,
test_infeasible.bounds,
constraints=test_infeasible.cons,
n=100,
options=options,
sampling_method='sobol')
numpy.testing.assert_equal(False, res.success)
def shgo_cube(objective,scale, n_trials, n_dim, with_count=False):
bounds = [(-scale,scale)]*n_dim
global feval_count
feval_count = 0
def _objective(x):
global feval_count
feval_count += 1
return objective(list(x))[0]
result = shgo(_objective, bounds, options={'maxfev':n_trials,'minimize_every_iter':False,'maxfun':n_trials}, sampling_method='sobol')
return (result.fun, feval_count) if with_count else result.fun
def test_shgo(problem, num):
best = math.inf
lb = problem.bounds.lb
ub = problem.bounds.ub
t0 = time.perf_counter()
for i in range(num):
ret = shgo(problem.fun,
bounds=list(zip(lb, ub)),
n=300,
sampling_method='sobol')
best = min(ret.fun, best)
print("{0}: time = {1:.1f} best = {2:.1f} f(xmin) = {3:.1f}".format(
i + 1, dtime(t0), best, ret.fun))
def test_6_2_simplicial_min_iter(self):
"""Test that maximum iteration option works on TestFunction 3"""
options = {'min_iter': 2}
res = shgo(test3_1.f,
test3_1.bounds,
constraints=test3_1.cons,
options=options,
sampling_method='simplicial')
numpy.testing.assert_allclose(res.x,
test3_1.expected_x,
rtol=1e-5,
atol=1e-5)
numpy.testing.assert_allclose(res.fun, test3_1.expected_fun, atol=1e-5)
def _calc_target_function(loss_function, bounds_type, method_optimization):
solution = None
if method_optimization == 'diff':
solution = optimize.differential_evolution(loss_function,
bounds_type)
if method_optimization == 'shgo':
solution = optimize.shgo(loss_function, bounds_type)
if method_optimization == 'dual':
solution = optimize.dual_annealing(loss_function,
bounds_type,
initial_temp=1)
return solution.x
def test_eval_count():
scale = 5
bounds = [(-scale,scale)]*6
global feval_count
feval_count = 0
def _objective(x):
global feval_count
feval_count += 1
return x[0]*x[1]*x[1]-3*x[0]
result = shgo(_objective, bounds, options={'maxfev':700}, sampling_method='sobol')
print(result.fun)
print(str(feval_count))
def adiabatic_theorem_check(beta, time):
#Performance counter
#GAMMA MAXIMIZATION
par_bnds = ([0, 1],)
energy_min = 1
minimization = shgo(compute_gamma, par_bnds,n=25, iters=1, args=(beta,),sampling_method='sobol')
gamma_max = -minimization.fun
#ENERGY MINIMUM
minimization = shgo(compute_energy_diff, par_bnds,n=25, iters=1, args=(beta,),sampling_method='sobol')
energy_min = minimization.fun
#TIME BOUNDS FOR ADIABATIC THEOREM
adiabatic_time = gamma_max/(energy_min**2)
if(time < adiabatic_time):
return 0
else:
return 1
def test_2_2_sobol_iter(self):
"""Iterative Sobol sampling on TestFunction 2 (univariate)"""
res = shgo(test2_1.f,
test2_1.bounds,
constraints=test2_1.cons,
n=None,
iters=1,
sampling_method='sobol')
numpy.testing.assert_allclose(res.x,
test2_1.expected_x,
rtol=1e-5,
atol=1e-5)
numpy.testing.assert_allclose(res.fun, test2_1.expected_fun, atol=1e-5)
def minimize_global_abs_diff(space_vals, model_vals, tolerance_mm,
normal_vectors):
(n, space_vals, space_vals_flat,
model_vals) = extract_optimization_vars(space_vals, model_vals)
bounds = extract_bounds(space_vals_flat, tolerance_mm)
a0 = extract_abs_diff_ratios(space_vals, model_vals)
minimized_vals = optimize.shgo(abs_diff_ratio_function_no_bounds,
bounds,
args=(model_vals, a0, n, space_vals_flat,
normal_vectors),
options={
'disp': True
}).x
return np.array(minimized_vals).reshape(n, 3).tolist()
def test_4_4_known_f_min(self):
"""Test Global mode limiting local evalutions for 1-D functions"""
options = { # Specify known function value
'f_min': test2_1.expected_fun,
'f_tol': 1e-6,
# Specify number of local iterations to perform+
'minimize_every_iter': True,
'local_iter': 1,
'infty_constraints': False}
res = shgo(test2_1.f, test2_1.bounds, constraints=test2_1.cons,
n=None, iters=None, options=options,
sampling_method='sobol')
numpy.testing.assert_allclose(res.x, test2_1.expected_x, rtol=1e-5,
atol=1e-5)
def test_4_4_known_f_min(self):
"""Test Global mode limiting local evalutions for 1D funcs"""
options = { # Specify known function value
'f_min': test2_1.expected_fun,
'f_tol': 1e-6,
# Specify number of local iterations to perform+
'minimize_every_iter': True,
'local_iter': 1,
'infty_constraints': False}
res = shgo(test2_1.f, test2_1.bounds, constraints=test2_1.cons,
n=None, iters=None, options=options,
sampling_method='sobol')
numpy.testing.assert_allclose(res.x, test2_1.expected_x, rtol=1e-5,
atol=1e-5)
def optimize(model, data, workflow):
#print(data)
model_gp = model['model']
selected_feature = model['selected_feature']
scaler = model['scaler']
cpu_loc = model['cpu_loc']
slo_target = slo_target_list[workflow]
### initialize data
X = data[selected_feature]
#normalized values
norm_temp = scaler.transform(X)[0]
length = len(norm_temp)
def cpusum(x):
"""sum of normalized cpu utilization of various microservices"""
return -1 * sum(x)
def cons_f(x):
temp = update_data(norm_temp, x)
#temp = np.concatenate(( x, norm_vm, norm_workload), axis=None).reshape(1,length)
y_pred, sigma = model_gp.predict(temp, return_std=True)
#print(temp, y_pred, sigma, slo_target)
return -1.0 * (y_pred + 2 * sigma) + slo_target
def update_data(ret, update_list):
length = len(ret)
temp = ret.copy()
for val in update_list:
temp[cpu_loc] = val
return np.array(temp).reshape(1, length)
bounds = [(-1, 1)] * len(cpu_loc)
cons = ({'type': 'ineq', 'fun': cons_f})
res = shgo(cpusum, bounds, iters=10, constraints=cons)
print(res.x, cpusum(res.x))
temp = update_data(norm_temp, res.x)
y_pred, sigma = model_gp.predict(temp, return_std=True)
print("response time=", y_pred, "stdev=", sigma, "target=", slo_target)
final_result = scaler.inverse_transform(temp)[0]
cputhresholds = [final_result[loc] for loc in cpu_loc]
print("denormalized cpu utilization % thresholds=", cputhresholds)
print("sum of denormalized cpu utilization % =", sum(cputhresholds))
print("\n")
def max_3_shgo_0():
bnd = ([1e-2, 1], [1e-2, 1], [0., 1], [0., 1], [d0 + thr, l0])
def cs_p(x):
return epsilon - prob_3(*x)
def cs_fair(x):
return fair_cond_3(*x) - (1 - alpha) * a0
cs = [{'type': 'ineq', 'fun': cs_p}, {'type': 'ineq', 'fun': cs_fair}]
def aim(x):
return -ce(util_3(*x)) / (1 + (vartheta0_(*x) / l0))
t = shgo(aim, bounds=bnd, constraints=cs, sampling_method='sobol')
return t
def max_1_shgo_0():
bnd = ([1e-2, 1.], [1e-2, 1.], [0., 1])
def cs_p(x):
return epsilon - prob_1(*x)
def cs_fair(x):
return fair_cond_1(*x) - (1 - alpha) * a0
cs = [{'type': 'ineq', 'fun': cs_p}, {'type': 'ineq', 'fun': cs_fair}]
def aim(x):
return -ce(util_1(*x))
t = shgo(aim, bounds=bnd, constraints=cs, sampling_method='sobol')
return t
def runAllocation2(self):
#####################################
## Optimization 2: Minimize budget ##
## identify m additional faults ##
#####################################
cons2 = ({
'type': 'eq',
'fun': self.optimization2,
'args': (self.covariate_data, )
})
bnds = tuple((0, None) for i in range(self.model.numCovariates))
self.res2 = shgo(
lambda x: sum([x[i] for i in range(self.model.numCovariates)]),
bounds=bnds,
constraints=cons2)
self.effort = np.sum(self.res2.x)
def shgo_cube(objective,
n_trials,
n_dim,
with_count: bool = False,
local_method=None,
sampling_method='sobol'):
""" Minimize a function on the cube using SHGO
:param objective: function on (0,1)^n_dim
:param n_trials:
:param n_dim:
:param with_count:
:return:
"""
minimizer_kwargs = MINIMIZER_KWARGS[local_method]
assert sampling_method in ['sobol', 'simplicial'
], ' did not understand sampling method'
bounds = [(0, 1)] * n_dim
global feval_count
feval_count = 0
def _objective(x):
global feval_count
feval_count += 1
return objective(list(x))
# Try to induce roughly the right number of function evaluations. This can be improved!
n_trials_reduced = int(n_trials / 2 + 1)
n_iters = int(1 + n_trials / 80)
n = int(5 + n_trials / 40)
result = shgo(_objective,
bounds,
n=n,
iters=n_iters,
options={
'maxfev': n_trials_reduced,
'minimize_every_iter': False,
'maxfun': n_trials_reduced,
'minimizer_kwargs': minimizer_kwargs
},
sampling_method=sampling_method)
return (result.fun, list(result.x),
feval_count) if with_count else (result.fun, result.x)
def run_test(test,
args=(),
test_atol=1e-5,
n=100,
iters=None,
callback=None,
minimizer_kwargs=None,
options=None,
sampling_method='sobol'):
res = shgo(test.f,
test.bounds,
args=args,
constraints=test.cons,
n=n,
iters=iters,
callback=callback,
minimizer_kwargs=minimizer_kwargs,
options=options,
sampling_method=sampling_method)
logging.info(res)
if test.expected_x is not None:
numpy.testing.assert_allclose(res.x,
test.expected_x,
rtol=test_atol,
atol=test_atol)
# (Optional tests)
if test.expected_fun is not None:
numpy.testing.assert_allclose(res.fun,
test.expected_fun,
atol=test_atol)
if test.expected_xl is not None:
numpy.testing.assert_allclose(res.xl, test.expected_xl, atol=test_atol)
if test.expected_funl is not None:
numpy.testing.assert_allclose(res.funl,
test.expected_funl,
atol=test_atol)
return
def max_2_shgo():
bnd = ([1e-2, 1], [0., 1], [0., 1], [1e-2, l0], [1e-2, l0])
def cs_p(x):
return epsilon - prob_2(*x)
def cs_fair(x):
return fair_cond_2(*x) - (1 - alpha) * a0
cs = [{'type': 'ineq', 'fun': cs_p}, {'type': 'ineq', 'fun': cs_fair}]
def aim(x):
return -ce(util_2(*x)) / (1 + (vartheta0(*x) / l0))
def cs_k(x):
return x[3] - (1 + fac) * x[4]
cs.append({'type': 'ineq', 'fun': cs_k})
t = shgo(aim, bounds=bnd, constraints=cs, sampling_method='sobol')
return t
def main():
args = create_cmd_args()
if not args:
args = get_input_args()
# Select subjects for fitting
if args.subject == 'all':
# Fit model to all subjects
subjects = range(100)
elif args.subject[0] == '-':
# For leave-one-subject-out cross validation
subjects = [int(x) for x in range(100) if x != -int(args.subject)]
else:
# For single subject fitting
subjects = [int(args.subject)]
notes = 'na'
bounds = model_bounds[args.training_model]
simulator, trials = build_simulator(args.experiment_name, subjects)
logfile = 'fitting_log_' + ymdhms() + '_' + str(args.subject) + '.txt'
with open(logfile, 'a') as file:
file.write(f'experiment_name: {args.experiment_name}\nsubject: {args.subject}\ntrials: {trials}\n'
f'approach_experiment: {args.approach_experiment}\n'
f'approach_model: {args.approach_model}, avoid_model: {args.avoid_model}\n'
f'training_model: {args.training_model}\n'
f'method: {args.method}\nbounds: {bounds}\nt_start: {args.t_start}, t_end: {args.t_end}\n'
f'preferred speed: {args.ps}\nnotes: {notes}\n')
if args.method == 'nelder-mead':
res = optimize.minimize(error, x0, args=(simulator, trials, logfile, args), method='nelder-mead',
options={'xatol': 1e-6, 'disp': True, 'adaptive': True})
elif args.method == 'shgo':
res = optimize.shgo(error, bounds, args=(simulator, trials, logfile, args))
elif args.method == 'dual_annealing':
res = optimize.dual_annealing(error, bounds, args=(simulator, trials, logfile, args),
initial_temp=25000)
elif args.method == 'differential_evolution':
res = optimize.differential_evolution(error, bounds, args=(simulator, trials, logfile, args),
updating='immediate', workers=1)
elif args.method == 'basinhopping':
res = optimize.basinhopping(error, bounds, minimizer_kwargs={'args':(simulator, trials, logfile, args)})
with open(logfile, 'a') as file:
file.write(f'The optimal x: {res.x}')
print(res.x)
def findFractionsComplete(specsignal, specspecies, lifesignal, lifespecies):
#signal is in the form [(s,g),harmonics] ie shape = (2,har)
#species is in form [(s,g),Pure components,harmonics] ie shape = (2,nComponents,harmonics)
def funcFs(x):
chisq = np.sum(
np.sum((np.squeeze(lifesignal) -
np.squeeze(np.sum(x * lifespecies, 2)))**2)) + np.sum(
np.sum((np.squeeze(specsignal) - np.squeeze(
np.sum(x * specspecies, 2)))**2)) #spectrum
return chisq
sz = np.size(lifespecies, 2)
bnds = [(0, 1) for x in range(sz)]
# init= [0.1 for x in range(sz)]
#init=[0.08,0.12,0.3,0.15,0.22,0.13]
cons = ({'type': 'eq', 'fun': lambda x: 1 - np.sum(x)})
# res = minimize(funcFs,init , method='SLSQP',bounds=bnds,constraints = cons,tol=1e-10)
res = optimize.shgo(funcFs, bounds=bnds, constraints=cons)
#res = minimize(funcFs,init , method='Nelder-Mead')#,bounds=bnds)#,constraints = cons,tol=1e-10)
res = res.x
return res
def optimize_gp(self):
"""
Optimisation of Gaussian Process hyperparameters, including lengthscale, amplitude, and correlation coeffcients.
Optimisation is done via maximising the log marginal likelihood.
"""
print(
"Optimizing GP hyperparameters and correlation coefficients, this may take a while..."
)
self.datastd = np.mean([
np.nanstd(self.gravfield),
np.nanstd(self.magfield),
np.nanstd(self.drillfield)
])
# run optimisation
bopt_res = shgo(self.calc_logl,
bounds=((0.5, 2), (0.5 * gp_lengthscale,
10 * gp_lengthscale),
(0.5 * gp_coeff[0], 1), (0.5 * gp_coeff[1], 1),
(0.5 * gp_coeff[2], 1)),
n=10,
iters=10,
sampling_method='sobol') #tol =1e-6, method='SLSQP'
#bopt_res = minimize(self.calc_logl, x0 = np.asarray([self.gp_amp, gp_lengthscale, gp_coeff[0], gp_coeff[1], gp_coeff[2]]),
# method = 'SLSQP', options={'maxiter': 10, 'disp': True, 'ftol': 1e-02})
if not bopt_res.success:
# Don't update parameters
print('WARNING: ' + bopt_res.message)
else:
# Update parameters with optimised solution
print(
"Initial parameter [amplitude, lengthscale, corr1, corr2, corr3]:"
)
print(self.gp_amp, self.gp_length, self.coeffm)
self.gp_amp = bopt_res.x[0]
self.gp_length = bopt_res.x[1]
self.coeffm = np.asarray([bopt_res.x[2:]]).flatten()
print(
"Optimized parameter [amplitude, lengthscale, corr1, corr2, corr3]:"
)
print(self.gp_amp, self.gp_length, self.coeffm)
def optimize(self) -> Match:
"""
Starts the optimization process and translates into a Match()
"""
opt: OptimizeResult = shgo(func=self.score, bounds=self.bounds)
if not opt["success"]:
return Match(
score=0.0,
matched=[
NoMatch() for _ in range(0, len(self.interpretations))
],
)
score = opt["fun"]
max_score = sqrt(sum(r.weight**2 for r in self.parser.rules.values()))
return Match(
score=max([0, (max_score - score) / max_score]),
matched=self._get_selection(opt["x"]),
)
def test8():
f = lambda x: (4 * x[0]**2 + 2 * x[1]**2 + 4 * x[0] * x[1] + 2 * x[1] + 1
) * exp(x[0])
# 用跳盆算法求函数的全局最小值
result1 = optimize.basinhopping(f, x0=[-1, 1])
# 在给定范围内用蛮力最小化函数。
# result2 = optimize.brute(f, ranges=(-2, 2))
# print(result2)
# 求多元函数的全局最小值。
result3 = optimize.differential_evolution(f, bounds=([-1, 1], [-2, 0]))
# print(result3)
# 使用SHG(简单同调全局优化”)优化法求函数的全局最小值
result4 = optimize.shgo(f, bounds=([-1, 1], [-2, 0]))
print(result4)
# 用对偶退火法求函数的全局最小值
result5 = optimize.dual_annealing(f, bounds=([-1, 1], [-2, 0]))
print(result5)
def train(self):
self.weights = brute(self._loss, ranges=[(0, 1), (0, 1), (0, 1), (0, 1)])[0]
logging.info("RecommenderWeightsComplicated: brute train done, weights = " + str(self.weights))
self.weights = np.array([1., 1., 1., 1.])
self.weights = shgo(self._loss, bounds=[(0, 1), (0, 1), (0, 1), (0, 1)])['x']
logging.info("RecommenderWeightsComplicated: shgo train done, weights = " + str(self.weights))
self.weights = np.array([1., 1., 1., 1.])
self.weights = basinhopping(self._loss, np.array([1., 1., 1., 1.]), niter=1).x
logging.info("RecommenderWeightsComplicated: basinhopping train done, weights = " + str(self.weights))
self.weights = np.array([1., 1., 1., 1.])
self.weights = differential_evolution(self._loss, bounds=[(0, 1), (0, 1), (0, 1), (0, 1)])['x']
logging.info("RecommenderWeightsComplicated: differential_evolution train done, weights = " + str(self.weights))
self.weights = np.array([1., 1., 1., 1.])
self.weights = dual_annealing(self._loss, bounds=[(0, 1), (0, 1), (0, 1), (0, 1)])['x']
logging.info("RecommenderWeightsComplicated: dual_annealing train done, weights = " + str(self.weights))
def solve_global(self, Ks, Ps, callput):
func = lambda x: np.sum(
np.square(self._parse_param(x).cal_price(Ks, callput) - Ps))
jac = lambda x: self._jac(x, Ks, Ps, callput)
N = self.shape[0]
lb = np.array([1e-5] * N * 2 + [0.01] * N + [0])
ub = np.array([1] * N + [3] * N + [3] * N + [1])
bounds = list(zip(lb, ub))
constr_func = lambda x: np.array(
[np.sum(x[:N]) + x[-1] - 1, x[:N].dot(x[N:2 * N]) - 1])
constr_jac = lambda x: np.array(
[[1] * N + [0] * N * 2 + [1],
np.concatenate([x[N:2 * N], x[:N], [0] * N, [0]])])
eq_cons = {'type': 'eq', 'fun': constr_func, 'jac': constr_jac}
reg = opt.shgo(func,
bounds=bounds,
constraints=[eq_cons],
minimizer_kwargs={'method': 'SLSQP'},
options={
'jac': jac,
'maxtime': 10
})
self._parse_param(reg.x)
return reg
def test_12_sobol_inf_cons(self):
"""Test to cover the case where f_lowest == 0"""
options = {'maxtime': 1e-15,
'f_min': 0.0}
res = shgo(test1_2.f, test1_2.bounds, n=1, iters=None,
options=options, sampling_method='sobol')
if robot_node.getPosition()[1] > best_height:
best_height = robot_node.getPosition()[1]
elif abs(velocity[1]) > 10:
best_height = 0
break
#reset the robot position
robot_node.remove()
children.importMFNode(-1, "Robot.wbo")
#return the negative max jump height
#this is because the scipy minimizes a function
return -best_height
#uncomment this line and the four lines in the jump_height funtion to optimize for lever length as well
#x0 = np.array([KNEE_INITIAL[1], HEEL_INITIAL[2], KNEE_TENDON_INITIAL, HEEL_TENDON_INITIAL])
x0 = np.array([KNEE_TENDON_INITIAL, HEEL_TENDON_INITIAL])
#use a global optimization algorithm to find the optimal value
#the bounds for the variables being optimized for need to be specified
#the iters parameter will give more precise results for a higher value, but will take more time
minimizer_kwargs = dict(method="Powell")
#to simply test the leg with the initial values provided, just comment this line.
optimized = shgo(jump_height, ((0, 30000), (0, 30000)),
iters=7,
minimizer_kwargs=minimizer_kwargs)
print(optimized.x)
print(optimized.fun)
def main():
global DF, PTABLE, OPTIONS
parser = argparse.ArgumentParser()
parser.add_argument("glob")
parser.add_argument("--period", type=int)
parser.add_argument("--bb-low", type=float)
parser.add_argument("--bb-high", type=float)
parser.add_argument("--lo-zone", type=float)
parser.add_argument("--hi-zone", type=float)
parser.add_argument("--lo-sigma", type=float)
parser.add_argument("--hi-sigma", type=float)
parser.add_argument("--protect-loss", type=bool)
parser.add_argument("--method", default="dual_annealing")
parser.add_argument("--finish", default=None)
args = parser.parse_args()
DF = pd.DataFrame(columns=["time", "mark", "ask", "bid"])
for csvfile in glob.glob(args.glob):
csvdf = pd.read_csv(csvfile, index_col=0)
csvdf["time"] = csvdf.apply(timefunc, axis=1)
csvdf["mark"] = pd.to_numeric(csvdf["mark"])
csvdf["ask"] = pd.to_numeric(csvdf["ask"])
csvdf["bid"] = pd.to_numeric(csvdf["bid"])
if DF.shape[0] > 0:
prev_time = DF.iloc[DF.shape[0] - 1]["time"]
prev_mark = DF.iloc[DF.shape[0] - 1]["mark"]
dt = csvdf.iloc[0]["time"] - prev_time
scale = csvdf.iloc[0]["mark"] - prev_mark
csvdf["time"] = csvdf["time"] - dt
csvdf["mark"] = csvdf["mark"] - scale
csvdf["ask"] = csvdf["ask"] - scale
csvdf["bid"] = csvdf["bid"] - scale
DF = DF.append(csvdf, ignore_index=True)
bounds_dict = {
"period": (12, 48 * 3600 / 5),
"bb_low": (0.25, 4),
"bb_high": (0.25, 4),
"lo_zone": (-0.1, 0.5),
"hi_zone": (0.5, 1.1),
"lo_sigma": (0, 4),
"hi_sigma": (0, 4),
"protect_loss": (0, 1),
}
abs_dict = {
"period": 1,
"bb_low": 0.1,
"bb_high": 0.1,
"lo_zone": 0.01,
"hi_zone": 0.01,
"lo_sigma": 0.1,
"hi_sigma": 0.1,
"protect_loss": 1,
}
PTABLE = PrettyTable([
"Iteration",
"Time",
"Period",
"BB Low",
"BB High",
"Low Zone",
"High Zone",
"Low Sigma",
"High Sigma",
"Protect",
"Return",
])
PTABLE.float_format = ".4"
bounds = []
bounds.append((0, 100))
bounds.append((
f"{datetime(2021, 1, 1, 0, 0, 0):%X}",
f"{datetime(2021, 1, 1, 23, 59, 59):%X}",
))
bounds.append([int(v) for v in bounds_dict["period"]])
bounds.append([float(v) for v in bounds_dict["bb_low"]])
bounds.append([float(v) for v in bounds_dict["bb_high"]])
bounds.append([float(v) for v in bounds_dict["lo_zone"]])
bounds.append([float(v) for v in bounds_dict["hi_zone"]])
bounds.append([float(v) for v in bounds_dict["lo_sigma"]])
bounds.append([float(v) for v in bounds_dict["hi_sigma"]])
bounds.append((False, True))
bounds.append((-99.0, 99.0))
for i in product([0, 1], repeat=len(bounds)):
PTABLE.add_row([bounds[j][i[j]] for j in range(len(bounds))])
OPTIONS = PTABLE._get_options({})
frows = PTABLE._format_rows(PTABLE._get_rows(OPTIONS), OPTIONS)
PTABLE._compute_widths(frows, OPTIONS)
PTABLE._hrule = PTABLE._stringify_hrule(OPTIONS)
print(PTABLE._stringify_header(OPTIONS))
fixed = []
bounds = []
abs_diff = []
for arg in [
"period",
"bb_low",
"bb_high",
"lo_zone",
"hi_zone",
"lo_sigma",
"hi_sigma",
"protect_loss",
]:
if getattr(args, arg) is not None:
fixed.append(getattr(args, arg))
else:
fixed.append(None)
bounds.append(bounds_dict[arg])
abs_diff.append(abs_dict[arg])
res = None
if args.method == "brute":
x0, fval, grid, Jout = optimize.brute(
func=run,
args=tuple(fixed),
ranges=bounds,
full_output=True,
finish=args.finish,
)
if grid.ndim == 1:
plt.plot(grid, -np.log(Jout))
plt.title(args.glob)
plt.show()
elif grid.ndim == 3:
fig = plt.figure(figsize=(10, 6))
ax1 = fig.add_subplot(111, projection="3d")
mycmap = plt.get_cmap("gist_earth")
surf1 = ax1.plot_surface(grid[0, :],
grid[1, :],
-np.log(Jout),
cmap=mycmap)
fig.colorbar(surf1, ax=ax1, shrink=0.5, aspect=5)
plt.title(args.glob)
plt.show()
elif args.method == "basinhopping":
res = optimize.basinhopping(
func=run,
x0=tuple(fixed),
minimizer_kwargs={"args": tuple(7 * [None])},
)
elif args.method == "shgo-sobol":
constraints = []
if args.period is None:
constraints.append({
"type": "eq",
"fun": lambda x: np.array([x[0] - int(x[0])])
})
if args.protect_loss is None:
constraints.append({
"type": "eq",
"fun": lambda x: np.array([x[7] - int(x[7])])
})
res = optimize.shgo(
func=run,
args=tuple(fixed),
bounds=bounds,
constraints=constraints,
options={"disp": True},
sampling_method="sobol",
minimizer_kwargs={"options": {
"eps": np.array(abs_diff)
}},
)
tbl = PrettyTable([
"Period",
"BB Low",
"BB High",
"Low Zone",
"High Zone",
"Low Sigma",
"High Sigma",
"Protect",
"Return",
])
tbl.float_format = ".4"
for minim in res.xl:
row = []
i = 0
for val in fixed:
if val is None:
row.append(minim[i])
i += 1
else:
row.append(val)
score = run(minim, *fixed)
row.append(-np.log(score))
tbl.add_row(row)
print(PTABLE._hrule)
print()
print(tbl)
elif args.method == "hyperopt":
space = [
hp.quniform("period", 12, 48 * 3600 / 5, 1),
hp.uniform("bb_low", 0.25, 4),
hp.uniform("bb_high", 0.25, 4),
hp.uniform("lo_zone", -0.1, 0.5),
hp.uniform("hi_zone", 0.5, 1.1),
hp.uniform("lo_sigma", 0, 4),
hp.uniform("hi_sigma", 0, 4),
hp.quniform("protect_loss", 0, 1, 1),
]
res = fmin(run, space, algo=tpe.suggest, max_evals=200)
print(run(space_eval(space, res)))
elif len(bounds) == 0:
run([], *fixed)
elif len(bounds) == 1:
x0 = [(bounds[0][0] + bounds[0][1]) / 2]
constraints = ()
options = {"disp": True}
if args.period is None:
constraints = [{
"type": "eq",
"fun": lambda x: np.array([x[0] - int(x[0])])
}]
options["finite_diff_rel_step"] = (1 / x0[0], )
res = optimize.minimize(
fun=run,
x0=x0,
method="trust-constr",
args=tuple(fixed),
bounds=Bounds(bounds[0][0], bounds[0][1]),
constraints=constraints,
options=options,
)
else:
res = getattr(optimize, args.method)(
func=run,
args=tuple(fixed),
bounds=bounds,
maxiter=1000000,
local_search_options={
"options": {
"disp": True
}
},
)
if res is not None:
print(res)
print(f"Glob = {args.glob}")
print(f"Default = {DF.iloc[DF.shape[0] - 1]['mark']/DF.iloc[0]['mark']}")
def custom_optimizer(fun, **kwargs):
r"""Wrapper for ``scipy.optimize.shgo`` that does not return y_min."""
opt_res = shgo(fun, **kwargs)
return opt_res.x, None
def calculate_densities(chain):
def objective(chain, x):
T = chain.Time_to_exp / 252
Rf = chain.Rf
c_total = len(chain.Call_Strike)
p_total = len(chain.Put_Strike)
w = x[0]
F1 = x[1]
sigma1 = x[2]
F2 = x[3]
sigma2 = x[4]
c_market = (chain.Call_Ask + chain.Call_Bid) / 2
p_market = (chain.Put_Ask + chain.Put_Bid) / 2
S1 = F1 * math.exp(-1 * Rf * T)
S2 = F2 * math.exp(-1 * Rf * T)
c_the =np.array([w*(american_option('c',S1,chain.Call_Dummy_Strike[i],T,Rf,sigma1)[0])\
+ (1-w)*(american_option('c',S2,chain.Call_Dummy_Strike[i],T,Rf,sigma2)[0])\
for i in range(c_total)])
p_the = np.array([w*(american_option('p',S1,chain.Put_Dummy_Strike[i],T,Rf,sigma1)[0])\
+ (1-w)*(american_option('p',S2,chain.Put_Dummy_Strike[i],T,Rf,sigma2)[0])\
for i in range(p_total)])
c_sse = np.sum((c_market - c_the)**2)
p_sse = np.sum((p_market - p_the)**2)
return c_sse + p_sse
def stock_density(S, sigma, r, T, S_T):
dens = (1 / (S_T * sigma * math.sqrt(2 * math.pi * T))) * (math.exp(
-0.5 *
(((math.log(S_T) - math.log(S) - r * T + 0.5 * T * sigma**2) /
(sigma * math.sqrt(T)))**2)))
return dens
def risk_neutral_density(x, chain, S_T):
w = x[0]
F1 = x[1]
sigma1 = x[2]
F2 = x[3]
sigma2 = x[4]
r = chain.Rf
T = chain.Time_to_exp / 252
S1 = F1 * math.exp(-r * T)
S2 = F2 * math.exp(-r * T)
dens = w * stock_density(S1, sigma1, r, T, S_T) + (
1 - w) * stock_density(S2, sigma2, r, T, S_T)
return dens
def real_world_density(x, chain, gamma, S_T):
r = chain.Rf
T = chain.Time_to_exp / 252
w = x[0]
F1 = x[1]
sigma1 = x[2]
F2 = x[3]
sigma2 = x[4]
F1_new = F1 * math.exp(gamma * T * sigma1**2)
F2_new = F2 * math.exp(gamma * T * sigma2**2)
one_by_w_new = 1 + ((1 - w) / w) * (
(F2 / F1)**gamma) * (math.exp(0.5 * T * (gamma**2 - gamma) *
(sigma2**2 - sigma1**2)))
w_new = 1 / one_by_w_new
S1 = F1_new * math.exp(-r * T)
S2 = F2_new * math.exp(-r * T)
dens = w_new * stock_density(S1, sigma1, r, T, S_T) + (
1 - w_new) * stock_density(S2, sigma2, r, T, S_T)
return dens
res_dict = dict()
fun_to_min = partial(objective, chain)
T = chain.Time_to_exp / 252
Rf = chain.Rf
S = chain.Stock_Last
F = S * math.exp(Rf * T)
bounds = [(0.0, 1.0), (0.5 * S, 1.5 * S), (0.01, 0.99), (0.5 * S, 1.5 * S),
(0.01, 0.99)]
eq_cons = {
'type': 'eq',
'fun': lambda x: np.array([x[0] * (x[1]) + (1 - x[0]) * (x[3]) - F])
}
ineq_cons = {'type': 'ineq', 'fun': lambda x: np.array([x[3] - x[1]])}
cons = (eq_cons, ineq_cons)
res = shgo(fun_to_min,
bounds,
n=120,
iters=5,
minimizer_kwargs={'method': "L-BFGS-B"},
constraints=cons,
options={'disp': False},
sampling_method='sobol')
# print(res.x)
res_dict['Name'] = chain.Name
res_dict['total_calls'] = chain.Call_total
res_dict['termination'] = res.success
res_dict['Prob Bearish'] = res.x[0]
res_dict['Prob Bullish'] = 1 - res.x[0]
#check again
if res.x[0] > 0.5:
res_dict['Direction_Price'] = 'Bullish'
else:
res_dict['Direction_Price'] = 'Bearish'
res_dict['F1'] = res.x[1]
res_dict['Stock_Last'] = chain.Stock_Last
res_dict['F2'] = res.x[3]
res_dict['sigma1'] = res.x[2]
res_dict['Impl_Vol'] = chain.Stock_Volt
res_dict['sigma2'] = res.x[4]
risk_neutral_dens_par = partial(risk_neutral_density, res.x, chain)
vec_risk_neutral_dens_par = np.vectorize(risk_neutral_dens_par)
real_world_dens_par_1 = partial(real_world_density, res.x, chain, 2)
vec_real_world_dens_par_1 = np.vectorize(real_world_dens_par_1)
real_world_dens_par_2 = partial(real_world_density, res.x, chain, 4)
vec_real_world_dens_par_2 = np.vectorize(real_world_dens_par_2)
prices = np.arange(S - 0.5 * S, S + 0.5 * S, 0.1)
risk_neutral = vec_risk_neutral_dens_par(prices)
real_world_1 = vec_real_world_dens_par_1(prices)
real_world_2 = vec_real_world_dens_par_2(prices)
return res_dict, prices, risk_neutral, real_world_1, real_world_2
def test_10_finite_time(self):
"""Test single function constraint passing"""
options = {'maxtime': 1e-15}
res = shgo(test1_1.f, test1_1.bounds, n=1, iters=None,
options=options, sampling_method='sobol')
def test_5_2_sobol_argless(self):
"""Test Default sobol sampling settings on TestFunction 1"""
res = shgo(test1_1.f, test1_1.bounds, constraints=test1_1.cons,
sampling_method='sobol')
numpy.testing.assert_allclose(res.x, test1_1.expected_x, rtol=1e-5,
atol=1e-5)
def run(self):
"""
Optimize the problem using selected Scipy optimizer.
Returns
-------
boolean
Failure flag; True if failed to converge, False is successful.
"""
problem = self._problem
opt = self.options['optimizer']
model = problem.model
self.iter_count = 0
self._total_jac = None
# Initial Run
with RecordingDebugging(self._get_name(), self.iter_count, self) as rec:
model.run_solve_nonlinear()
self.iter_count += 1
self._con_cache = self.get_constraint_values()
desvar_vals = self.get_design_var_values()
self._dvlist = list(self._designvars)
# maxiter and disp get passsed into scipy with all the other options.
self.opt_settings['maxiter'] = self.options['maxiter']
self.opt_settings['disp'] = self.options['disp']
# Size Problem
nparam = 0
for param in itervalues(self._designvars):
nparam += param['size']
x_init = np.empty(nparam)
# Initial Design Vars
i = 0
use_bounds = (opt in _bounds_optimizers)
if use_bounds:
bounds = []
else:
bounds = None
for name, meta in iteritems(self._designvars):
size = meta['size']
x_init[i:i + size] = desvar_vals[name]
i += size
# Bounds if our optimizer supports them
if use_bounds:
meta_low = meta['lower']
meta_high = meta['upper']
for j in range(size):
if isinstance(meta_low, np.ndarray):
p_low = meta_low[j]
else:
p_low = meta_low
if isinstance(meta_high, np.ndarray):
p_high = meta_high[j]
else:
p_high = meta_high
bounds.append((p_low, p_high))
if use_bounds and (opt in _supports_new_style) and _use_new_style:
# For 'trust-constr' it is better to use the new type bounds, because it seems to work
# better (for the current examples in the tests) with the "keep_feasible" option
try:
from scipy.optimize import Bounds
from scipy.optimize._constraints import old_bound_to_new
except ImportError:
msg = ('The "trust-constr" optimizer is supported for SciPy 1.1.0 and above. '
'The installed version is {}')
raise ImportError(msg.format(scipy_version))
# Convert "old-style" bounds to "new_style" bounds
lower, upper = old_bound_to_new(bounds) # tuple, tuple
keep_feasible = self.opt_settings.get('keep_feasible_bounds', True)
bounds = Bounds(lb=lower, ub=upper, keep_feasible=keep_feasible)
# Constraints
constraints = []
i = 1 # start at 1 since row 0 is the objective. Constraints start at row 1.
lin_i = 0 # counter for linear constraint jacobian
lincons = [] # list of linear constraints
self._obj_and_nlcons = list(self._objs)
if opt in _constraint_optimizers:
for name, meta in iteritems(self._cons):
size = meta['size']
upper = meta['upper']
lower = meta['lower']
equals = meta['equals']
if 'linear' in meta and meta['linear']:
lincons.append(name)
self._con_idx[name] = lin_i
lin_i += size
else:
self._obj_and_nlcons.append(name)
self._con_idx[name] = i
i += size
# In scipy constraint optimizers take constraints in two separate formats
# Type of constraints is list of NonlinearConstraint
if opt in _supports_new_style and _use_new_style:
try:
from scipy.optimize import NonlinearConstraint
except ImportError:
msg = ('The "trust-constr" optimizer is supported for SciPy 1.1.0 and'
'above. The installed version is {}')
raise ImportError(msg.format(scipy_version))
if equals is not None:
lb = ub = equals
else:
lb = lower
ub = upper
# Loop over every index separately,
# because scipy calls each constraint by index.
for j in range(size):
# Double-sided constraints are accepted by the algorithm
args = [name, False, j]
# TODO linear constraint if meta['linear']
# TODO add option for Hessian
con = NonlinearConstraint(fun=signature_extender(self._con_val_func, args),
lb=lb, ub=ub,
jac=signature_extender(self._congradfunc, args))
constraints.append(con)
else: # Type of constraints is list of dict
# Loop over every index separately,
# because scipy calls each constraint by index.
for j in range(size):
con_dict = {}
if meta['equals'] is not None:
con_dict['type'] = 'eq'
else:
con_dict['type'] = 'ineq'
con_dict['fun'] = self._confunc
if opt in _constraint_grad_optimizers:
con_dict['jac'] = self._congradfunc
con_dict['args'] = [name, False, j]
constraints.append(con_dict)
if isinstance(upper, np.ndarray):
upper = upper[j]
if isinstance(lower, np.ndarray):
lower = lower[j]
dblcon = (upper < openmdao.INF_BOUND) and (lower > -openmdao.INF_BOUND)
# Add extra constraint if double-sided
if dblcon:
dcon_dict = {}
dcon_dict['type'] = 'ineq'
dcon_dict['fun'] = self._confunc
if opt in _constraint_grad_optimizers:
dcon_dict['jac'] = self._congradfunc
dcon_dict['args'] = [name, True, j]
constraints.append(dcon_dict)
# precalculate gradients of linear constraints
if lincons:
self._lincongrad_cache = self._compute_totals(of=lincons, wrt=self._dvlist,
return_format='array')
else:
self._lincongrad_cache = None
# Provide gradients for optimizers that support it
if opt in _gradient_optimizers:
jac = self._gradfunc
else:
jac = None
# Hessian calculation method for optimizers, which require it
if opt in _hessian_optimizers:
if 'hess' in self.opt_settings:
hess = self.opt_settings.pop('hess')
else:
# Defaults to BFGS, if not in opt_settings
from scipy.optimize import BFGS
hess = BFGS()
else:
hess = None
# compute dynamic simul deriv coloring if option is set
if coloring_mod._use_sparsity and self.options['dynamic_simul_derivs']:
coloring_mod.dynamic_simul_coloring(self, run_model=False, do_sparsity=False)
# optimize
try:
if opt in _optimizers:
result = minimize(self._objfunc, x_init,
# args=(),
method=opt,
jac=jac,
hess=hess,
# hessp=None,
bounds=bounds,
constraints=constraints,
tol=self.options['tol'],
# callback=None,
options=self.opt_settings)
elif opt == 'basinhopping':
from scipy.optimize import basinhopping
def fun(x):
return self._objfunc(x), jac(x)
if 'minimizer_kwargs' not in self.opt_settings:
self.opt_settings['minimizer_kwargs'] = {"method": "L-BFGS-B", "jac": True}
self.opt_settings.pop('maxiter') # It does not have this argument
def accept_test(f_new, x_new, f_old, x_old):
# Used to implement bounds besides the original functionality
if bounds is not None:
bound_check = all([b[0] <= xi <= b[1] for xi, b in zip(x_new, bounds)])
user_test = self.opt_settings.pop('accept_test', None) # callable
# has to satisfy both the bounds and the acceptance test defined by the
# user
if user_test is not None:
test_res = user_test(f_new, x_new, f_old, x_old)
if test_res == 'force accept':
return test_res
else: # result is boolean
return bound_check and test_res
else: # no user acceptance test, check only the bounds
return bound_check
else:
return True
result = basinhopping(fun, x_init,
accept_test=accept_test,
**self.opt_settings)
elif opt == 'dual_annealing':
from scipy.optimize import dual_annealing
self.opt_settings.pop('disp') # It does not have this argument
# There is no "options" param, so "opt_settings" can be used to set the (many)
# keyword arguments
result = dual_annealing(self._objfunc,
bounds=bounds,
**self.opt_settings)
elif opt == 'differential_evolution':
from scipy.optimize import differential_evolution
# There is no "options" param, so "opt_settings" can be used to set the (many)
# keyword arguments
result = differential_evolution(self._objfunc,
bounds=bounds,
**self.opt_settings)
elif opt == 'shgo':
from scipy.optimize import shgo
kwargs = dict()
for param in ('minimizer_kwargs', 'sampling_method ', 'n', 'iters'):
if param in self.opt_settings:
kwargs[param] = self.opt_settings[param]
# Set the Jacobian and the Hessian to the value calculated in OpenMDAO
if 'minimizer_kwargs' not in kwargs or kwargs['minimizer_kwargs'] is None:
kwargs['minimizer_kwargs'] = {}
kwargs['minimizer_kwargs'].setdefault('jac', jac)
kwargs['minimizer_kwargs'].setdefault('hess', hess)
# Objective function tolerance
self.opt_settings['f_tol'] = self.options['tol']
result = shgo(self._objfunc,
bounds=bounds,
constraints=constraints,
options=self.opt_settings,
**kwargs)
else:
msg = 'Optimizer "{}" is not implemented yet. Choose from: {}'
raise NotImplementedError(msg.format(opt, _all_optimizers))
# If an exception was swallowed in one of our callbacks, we want to raise it
# rather than the cryptic message from scipy.
except Exception as msg:
if self._exc_info is not None:
self._reraise()
else:
raise
if self._exc_info is not None:
self._reraise()
self.result = result
if hasattr(result, 'success'):
self.fail = False if result.success else True
if self.fail:
print('Optimization FAILED.')
print(result.message)
print('-' * 35)
elif self.options['disp']:
print('Optimization Complete')
print('-' * 35)
else:
self.fail = True # It is not known, so the worst option is assumed
print('Optimization Complete (success not known)')
print(result.message)
print('-' * 35)
return self.fail
def test_5_1_simplicial_argless(self):
"""Test Default simplicial sampling settings on TestFunction 1"""
res = shgo(test1_1.f, test1_1.bounds, constraints=test1_1.cons)
numpy.testing.assert_allclose(res.x, test1_1.expected_x, rtol=1e-5,
atol=1e-5)
