def func_wrapper(inst, *args, **kwargs):
try:
res, res_err, chi_dof, aicc, pcov = fit_func(
inst, *args, **kwargs)
if any(res_err == 0.0):
raise ValueError("Fit error is zero!")
except Exception as e:
lg.info("\nWarning: Fit failed! Exception was:", e, "\n")
if lg.isLevel("DEBUG"):
traceback.print_exc()
res = np.full(inst._nparams, np.nan)
res_err = np.full(inst._nparams, np.nan)
pcov = np.full((inst._nparams, inst._nparams), np.nan)
chi_dof = np.inf
aicc = np.inf
if inst._btstr_fit:
inst._samples.append([[(np.nan, ) * inst._nparams,
(np.nan, ) * inst._nparams, np.nan,
np.nan]
for sitt in range(inst._nfit_samples)
])
return res, res_err, chi_dof, aicc, pcov
def _fit_loop(self):
lg.info("\nStart fit loop from tmin = %d to tmax = %d" %
(self._fit_interval[0], self._fit_interval[1] - 1))
lg.info(
"\nYou will probably see a lot of errors\n"
"This is normal, as we try a lot of different fitting methods\n"
"and not all of them will work\n")
for i in range(*self._fit_interval):
xmin, xmax = i, self.xmax(i)
self.perform_fit(xmin, xmax)
def _get_start_params_osc(self, xmin, xmax):
self._osc_fit(xmin, xmax)
self._no_fit(xmin, xmax)
self._add_sep_data()
if any(np.isnan(self._sep[-1])):
start_params = None
lg.info("Failed to estimate start parameters for oscillating fit")
else:
start_params = self._sep[-1]
return start_params
def _write_data(self):
os.makedirs(self._folder, exist_ok=True)
if self._sym:
method_string = "sym"
else:
method_string = "asym"
if self._jack_data or self._std_err_data or self._ratio_data:
method_string += "_jk"
if self._btstr_data:
method_string += "_btstr"
if self._sample_data:
method_string += "_fr_sample"
if not self._direct_data:
lg.info("Write effective mass...")
if self._nstates_osc > 0:
write_eff_mass(self._folder + "/effmass_no_" + method_string +
self._file_string + ".txt",
self._meff_no,
self._meff_no_err,
self._xdata_no,
osc=True)
write_eff_mass(self._folder + "/effmass_osc_" + method_string +
self._file_string + ".txt",
self._meff_osc,
self._meff_osc_err,
self._xdata_osc,
osc=True)
else:
write_eff_mass(
self._folder + "/effmass_" + method_string +
self._file_string + ".txt", self._meff, self._meff_err,
self._xdata)
write_fit_mass(self._folder + "/fitmass_" + self._out_name + ".txt",
self._ranges, self._res, self._res_err, self._chi_dof,
self._aicc, self._nstates, self._nstates_osc)
write_pcov(self._folder + "/pcov_" + self._out_name + ".txt",
self._ranges, self._pcov, self._nstates, self._nstates_osc)
write_corr(self._folder + "/corr_" + self._out_name + ".txt",
self._xdata, self._ydata, self._edata)
if self._btstr_fit:
write_sample(
self._folder + "/fitmass_sample_" + self._out_name + ".txt",
self._ranges, self._samples, self._nstates, self._nstates_osc)
def calc_mult_const(self):
# mult_const=1e-11
try:
mult_const = np.abs(self._ydata[int(self._Nt / 2)])
except IndexError:
try:
mult_const = abs(self._ydata[-1])
#If data are empty
except IndexError:
mult_const = 1
lg.info("Normalize correlator with", mult_const)
self._mult_const = abs(mult_const)
#self._mult_const = 1
#print("WARNING MULT CONSTANT SET TO ONE")
return self._mult_const
def _est_params_one_state_osc(self, xmin, xmax):
even = self._xdata % 2 == 0
odd = self._xdata % 2 == 1
try:
self.gen_fit_data(xmin, xmax, correlated=False, ind=even)
#Prevent parent class from generating new fit data, as we set them manually here
self._no_new_data = True
lg.info("Fit even part...")
start_params = self._est_params_one_state(xmin, xmax, ind=even)
res_e = self.simple_corr_fit(xmin,
xmax,
start_params=start_params,
correlated=False,
nstates=1,
nstates_osc=0)[0]
print_res("Results from even fit", res_e, level="INFO")
self.gen_fit_data(xmin, xmax, correlated=False, ind=odd)
lg.info("Fit odd part...")
start_params = self._est_params_one_state(xmin, xmax, ind=odd)
res_o = self.simple_corr_fit(xmin,
xmax,
start_params=start_params,
correlated=False,
nstates=1,
nstates_osc=0)[0]
print_res("Results from odd fit", res_o, level="INFO")
self._no_new_data = False
#In principle res_e should be larger than res_o, but there are cases where this is
#not the case. We have make sure that the amplitude is positive at his point
A_osc = abs(res_e[0] - res_o[0]) / 2
A_no = (res_o[0] + res_e[0]) / 2
m = (res_e[1] + res_o[1]) / 2
start_params = np.array([A_no, m, A_osc, m])
finally:
self._no_new_data = False
return start_params
def _fit_corr_fr_data(self, data, xmin, xmax, start_params):
lg.info()
lg.info("Fitrange [ %d, %d ]" % (xmin, xmax))
if self._scnd_btstr:
ydata, edata = bs.bootstr(self._calc_mean,
data,
self._numb_samples,
err_by_dist=self._ng_btstr,
same_rand_for_obs=False)
corr_fitter = CorrFitter(self._xdata, ydata, edata, Nt=self._Nt)
else:
if self._correlated:
ydata, edata, cov = self._calc_cov_and_mean(data)
corr_fitter = CorrFitter(self._xdata, ydata, cov, Nt=self._Nt)
else:
ydata, edata = mean_and_err(data, axis=1)
corr_fitter = CorrFitter(self._xdata,
ydata,
edata,
Nt=self._Nt)
res, res_err, chi_dof, aicc, pcov = corr_fitter.corr_fit(
xmin,
xmax,
start_params,
correlated=self._correlated,
priorval=self._priorval,
priorsigma=self._priorsigma,
nstates=self._nstates,
nstates_osc=self._nstates_osc)
if self._nstates_osc > 0:
if res[1] < res_err[1] or res[2 * self._nstates +
1] < res_err[2 * self._nstates + 1]:
raise ValueError("Fit error larger than value")
else:
if res[1] < res_err[1]:
raise ValueError("Fit error larger than value")
return res, res_err, chi_dof, aicc, pcov
def _est_params_one_state(self, xmin, xmax, ind=None):
# estimation of starting parameters via linear fit does not work for periodic
# boundaries. Therefore we have to fit on the half interval.
start_params = [1, 1]
est_range = [int(xmin), int(min(xmax, self._Nt / 2))]
#For estimating parameters of oscillating correlators, we use this function to estimate
#the parameters for the even/odd part. We have to make sure that we use even/odd part
#by this routine.
lg.info("Estimate parameters: Linear fit for one state...")
if ind is None:
ind = (self._xdata > est_range[0]) & (self._xdata < est_range[1])
else:
ind = (self._xdata > est_range[0]) & (self._xdata <
est_range[1]) & ind
try:
(tmp_start_params, tmp_start_params_cov) = curve_fit(
linear,
self._xdata[ind],
np.log(np.abs(self._ydata[ind])),
sigma=1 / self._ydata[ind] * self._edata[ind])
if tmp_start_params[0] > 50 or tmp_start_params[1] > 50:
start_params = [1, 1]
else:
start_params[0] = 1 / self._mult_const * np.exp(tmp_start_params[0])\
* np.exp(-tmp_start_params[1] * self._Nt / 2) * 2
start_params[1] = tmp_start_params[1]
except Exception as e:
lg.info("Linear fit failed. Error was", e)
if lg.isLevel("DEBUG"):
traceback.print_exc()
start_params = [1, 1]
print_res("Final start parameters for uncorrelated fit",
start_params,
level="INFO")
return start_params
def _get_start_params(self, res, res_err, ratio=np.inf, ignore_ext=False):
if not ignore_ext and self._start_params is not None:
lg.info("Use start parameters from user")
return self._start_params
if len(res) < 1 or len(res_err) < 1:
return None
last_res = res[-1]
last_err = res_err[-1]
for i in range(len(last_res)):
if np.isnan(last_res[i]):
return None
if last_err[i] / np.abs(last_res[i]) > ratio:
return None
return last_res
def run(self):
if self._res_filename is not None:
self._out_name += "_fr-file"
self.read_in_results()
if not self._plot_start:
if self._res_filename is None:
self._fit_loop()
else:
self._res.append(self._start_params)
fit_range = (self._fit_interval[0],
self.xmax(self._fit_interval[0]))
self._ranges.append(fit_range)
self._res_err.append(np.zeros_like(self._start_params))
self._out_name += "_start_params"
# self._corr_fitter.set_mult_const(1)
print_scl("Chi^2/d.o.f.",
self._corr_fitter.calc_chisquare_dof(
self._res[-1], *fit_range),
level="INFO")
lg.info("Plot data...")
self.plot_corr()
if self._correlated:
lg.info("Plot covariance matrix...")
self._plot_cov_mat()
if not (self._plot_start or self._res_filename is not None):
lg.info("Write out data...")
self._write_data()
def _no_fit(self, xmin, xmax):
# We do not use constraint fits here as this fit is for parameter estimation
lg.info()
start_params_no = self._get_start_params(self._res_no,
self._res_no_err,
ratio=1,
ignore_ext=True)
try:
lg.info("Fit non-osc. correlator...")
res_no, res_no_err, chi_dof_no, aicc_no, pcov_no = self._no_corr_fitter.corr_fit(
xmin,
xmax,
start_params_no,
correlated=False,
nstates=self._nstates,
nstates_osc=0)
self._res_no.append(res_no)
self._res_no_err.append(res_no_err)
self._chi_dof_no.append(chi_dof_no)
self._aicc_no.append(aicc_no)
except Exception as e:
lg.info("\nWarning. Fit failed:", e, "\n")
if lg.isLevel("DEBUG"):
traceback.print_exc()
self._res_no.append(np.full(2 * self._nstates, np.nan))
self._res_no_err.append(np.full(2 * self._nstates, np.nan))
self._chi_dof_no.append(np.nan)
self._aicc_no.append(np.nan)
def bs_fit(self, xmin, xmax, start_params):
lg.info("\nFirst fit to estimate start parameters")
start_params = self.direct_fit(xmin, xmax, start_params)[0]
lg.info("\nStart bootstrap...")
if self._correlated:
(sample, (res, tmp_err, chi_dof, aicc, pcov),
(res_err, tmp_err_err, chi_err, aicc_err,
pcov_err)) = bs.bootstr(self._fit_corr_fr_data,
self._data,
self._nfit_samples,
args=(xmin, xmax, start_params),
same_rand_for_obs=True,
err_by_dist=self._ng_btstr,
return_sample=True,
seed=self._seed,
nmax_exceptions=0.5 * self._nfit_samples)
else:
(sample, (res, tmp_err, chi_dof, aicc, pcov),
(res_err, tmp_err_err, chi_err, aicc_err,
pcov_err)) = bs.bootstr(self._fit_corr_fr_data,
self._data,
self._nfit_samples,
args=(xmin, xmax, start_params),
return_sample=True,
err_by_dist=self._ng_btstr,
seed=self._seed,
nmax_exceptions=0.5 * self._nfit_samples)
self._samples.append(sample)
all_res = [i[0] for i in sample]
# Compute covariance matrix from sample
pcov = calc_cov(np.array(all_res).transpose())
lg.info("\n\n\n")
print_res("Final result for %d + %d bootstrap fit" %
(self._nstates, self._nstates_osc),
res,
res_err,
chi_dof,
level="INFO")
return res, res_err, chi_dof, aicc, pcov
def jk_fit(self, xmin, xmax, start_params):
lg.info("\nFirst fit to estimate start parameters...")
start_params = self.direct_fit(xmin, xmax, start_params)[0]
lg.info("\nStart jackknife...")
((res, tmp_err, chi_dof, aicc, pcov),
(res_err, tmp_err_err, chi_err, aicc_err,
pcov_err)) = jk.jackknife(self._fit_corr_fr_data,
self._data,
self._numb_blocks,
args=(xmin, xmax, start_params))
lg.info("\n\n\n")
print_res("Final result for %d + %d jackknife fit" %
(self._nstates, self._nstates_osc),
res,
res_err,
chi_dof,
level="INFO")
return res, res_err, chi_dof, aicc, pcov
def _compute_samples(self, nknots):
# For start parameter estimation perform a direct fit
knots, res, res_err, chi_dof = multi_spline_fit(
linear,
2,
1 / self._Nts**2,
self._xdata,
self._av_ydata,
self._av_edata,
randomization_factor=0,
order=self._order,
tol=self._tol,
always_return=True,
constraints=self._constraints,
base_point=self._base_point,
nknots=nknots,
knots=self._knots,
algorithms=["curve_fit"])
lg.info("Reference knots of full fit = ", knots)
self._direct_knots.append(knots)
lg.info("Chi^2/d.o.f. of first full fit:", chi_dof)
if self._method == 'gauss_btstr':
sample, tmp_res, tmp_res_err = bs.bootstr_from_gauss(
self._fit_once,
self._av_ydata,
self._av_edata,
self._nsamples,
err_by_dist=True,
return_sample=True,
args={
'edata': self._av_edata,
'start_params': res,
'nknots': nknots
},
nmax_exceptions=0.25 * self._nsamples)
elif self._method == 'from_sample':
sample = []
nsamples = len(self._ydata[0][0])
nsteps = min(self._nsamples, nsamples)
if nsteps < nsamples:
lg.warn("WARNING not using all samples that are available")
if nsteps < 100:
step = 1
else:
step = nsteps / 100
for i in range(nsteps):
current_ydata = []
current_edata = []
for j in range(len(self._ydata)):
current_ydata.append(self._ydata[j][:, i])
if self._no_edata:
current_edata.append(self._av_edata[j])
else:
current_edata.append(self._edata[j][:, i])
tmp_res = self._fit_once(current_ydata, current_edata, res,
nknots)
sample.append(tmp_res)
if i % step == 0:
lg.progress("%d%%" % ((i + 1) / nsteps * 100))
elif self._method == 'btstr':
sample, tmp_res, tmp_res_err = bs.bootstr(self._fit_func,
self._ydata,
self._nsamples,
conf_axis=2,
same_rand_for_obs=True,
err_by_dist=True,
return_sample=True,
args={
'start_params': res,
'nknots': nknots
},
nmax_exceptions=0.25 *
self._nsamples)
elif self._method == 'direct':
sample = None
else:
raise ValueError("No such method: " + str(self._method))
return res, res_err, sample
def _est_params_osc(self, xmin, xmax, nstates, nstates_osc):
lg.info(
"Estimate parameters: Fit range for %d + %d state fit: [" %
(nstates, nstates_osc), xmin, ",", xmax, "]")
est_range = self._get_est_range(
xmin, xmax, self.est_weights_osc[max(nstates, nstates_osc)])
nparams_no = 2 * nstates
nparams = 2 * (nstates + nstates_osc)
start_params = np.ones(nparams)
if nstates + nstates_osc == 2:
return self._est_params_one_state_osc(xmin, xmax)
else:
if nstates <= nstates_osc:
tmp_params = self._est_params_osc(est_range[0], est_range[1],
nstates, nstates_osc - 1)
print_res("Start parameters for %d + %d fit" %
(nstates, nstates_osc - 1),
tmp_params,
level="INFO")
tmp_params = self.simple_corr_fit(*est_range,
correlated=False,
start_params=tmp_params,
nstates=nstates,
nstates_osc=nstates_osc -
1)[0]
start_params[:nparams - 2] = tmp_params
m = 5 / 4. * start_params[-3]
A = self._ydata[int(xmin)] - self._func(
xmin, tmp_params, nstates, nstates_osc - 1)
A /= -np.cos(np.pi * xmin) * np.cosh(
m * (xmin - self._Nt / 2)) * self._mult_const
start_params[-2] = A
start_params[-1] = m
else:
tmp_params = self._est_params_osc(est_range[0], est_range[1],
nstates - 1, nstates_osc)
print_res("Start parameters for %d + %d fit" %
(nstates - 1, nstates_osc),
tmp_params,
level="INFO")
tmp_params = self.simple_corr_fit(*est_range,
correlated=False,
start_params=tmp_params,
nstates=nstates - 1,
nstates_osc=nstates_osc)[0]
start_params[:nparams_no - 2] = tmp_params[:nparams_no - 2]
start_params[nparams_no:] = tmp_params[nparams_no - 2:]
m = 5 / 4. * start_params[nparams_no - 3]
A = self._ydata[int(xmin)] - self._func(
xmin, tmp_params, nstates - 1, nstates_osc)
A /= np.cosh(m * (xmin - self._Nt / 2)) * self._mult_const
start_params[nparams_no - 2] = A
start_params[nparams_no - 1] = m
return start_params
def _compute_meff(self):
lg.info("Cmpute effective mass...")
# It is always better to use a jackknife for meff instead of a computation
# based on error propagation. Therefore we use a Jacknife also if the data flag is set
# to std_err_data.
if self._jack_data or self._std_err_data or self._ratio_data:
if self._nstates_osc > 0:
rm_osc, rm_osc_err = jk.jackknife(remove_osc,
self._data,
self._numb_blocks,
args=(self._xdata, ))
else:
eff_mass, eff_mass_err = jk.jackknife(calc_eff_mass,
self._data,
self._numb_blocks,
args=(self._xdata,
self._Nt))
if self._btstr_data:
if self._nstates_osc > 0:
rm_osc, rm_osc_err = bs.bootstr(remove_osc,
self._data,
self._numb_samples,
err_by_dist=self._ng_btstr,
args=(self._xdata, ),
seed=self._seed)
else:
eff_mass, eff_mass_err = bs.bootstr(calc_eff_mass,
self._data,
self._numb_samples,
err_by_dist=self._ng_btstr,
args=(self._xdata,
self._Nt),
seed=self._seed)
if self._sample_data:
if self._nstates_osc > 0:
results = []
for i in range(len(self._data[0])):
results.append(remove_osc_av(self._data[:, i],
self._xdata))
rm_osc = std_mean(results)
rm_osc_err = std_dev(results)
else:
eff_masses = []
for i in range(len(self._data[0])):
eff_masses.append(
calc_eff_mass_direct(self._data[:, i], self._xdata,
self._Nt))
eff_mass, eff_mass_err = mean_and_std_dev(eff_masses)
if not self._direct_data:
if self._nstates_osc > 0:
# Nan destroys the whole fit, as the chi^2 becomes nan. Therefore we have to remove
# those from the helper arrays for parameter estimation.
rm_osc = remove_nan(*(rm_osc + rm_osc_err))
self._xdata_osc = rm_osc[0]
self._xdata_no = rm_osc[0]
self._ydata_no = rm_osc[1]
self._ydata_osc = rm_osc[2]
self._edata_no = rm_osc[8]
self._edata_osc = rm_osc[9]
self._meff_no = rm_osc[3]
self._meff_osc = rm_osc[4]
self._meff_no_err = rm_osc[10]
self._meff_osc_err = rm_osc[11]
else:
self._meff = eff_mass
self._meff_err = eff_mass_err
def _est_params_non_osc(self, xmin, xmax, nstates):
lg.info("Estimate parameters: Fit range for", numToWords(nstates),
"state fit: [", xmin, ",", xmax, "]")
nparams = 2 * nstates
start_params = np.ones(nparams)
est_range = self._get_est_range(xmin, xmax, self.est_weights[nstates])
if nstates == 1:
return self._est_params_one_state(xmin, xmax)
else:
start_params[0:nparams - 2] = self._est_params_non_osc(
est_range[0], est_range[1], nstates - 1)
print_res("Starting parameters for " + numToWords(nstates - 1) +
" state fit",
start_params[0:nparams - 2],
level="INFO")
start_params[0:nparams - 2] = self.simple_corr_fit(
nstates=nstates - 1,
correlated=False,
xmin=est_range[0],
xmax=est_range[1],
start_params=start_params[0:nparams - 2])[0]
#plot_func(self._func, xmin = 0, xmax = xmax,
# args = (start_params[0:nparams - 2], nstates - 1, 0))
print_res("Results from " + numToWords(nstates - 1) + " state fit ",
start_params[0:nparams - 2],
level="INFO")
#This is necessary to ensure that fit_ansatz_array gives the correct data.
self.gen_fit_data(xmin, min(int(self._Nt / 2), xmax), correlated=False)
higher_state_data = self._fit_ydata - self.fit_ansatz_array(
start_params[0:nparams - 2])
sign_changed = False
if higher_state_data[0] < 0:
lg.info("Higher state seems to have negative amplitude!")
higher_state_data *= -1
sign_changed = True
lg.info("Estimate parameters: Linear fit for higher state...")
tmp_start_params, tmp_start_params_cov = curve_fit(
linear,
self._fit_xdata,
np.log(np.abs(higher_state_data)),
sigma=1 / higher_state_data * self._fit_edata)
start_params[nparams - 2] = np.exp(tmp_start_params[0]) * \
np.exp(-tmp_start_params[1] * self._Nt / 2) * 2 / self._mult_const
#We already multiplied with -1, therefore > instead of <
if sign_changed:
start_params[nparams - 2] *= -1
start_params[nparams - 1] = tmp_start_params[1]
lg.info("Estimate parameters: Start", numToWords(nstates),
" state fit with fixed parameters...")
def red_corr(x, params, fixed_params, nstates):
return self._corr(x, fixed_params, nstates - 1, 0)\
+ self._corr(x, params, 1, 0)
self._func = red_corr
self._args = (start_params[0:nparams - 2], nstates)
self._grad_args = (1, 0)
self._hess_args = (1, 0)
print_res("Starting parameters for first " + numToWords(nstates) +
" state fit",
start_params,
level="INFO")
start_params[nparams - 2:], tmp_res_err, chi_dof = self.try_fit(
self._std_algs,
xmin=xmin,
xmax=xmax,
start_params=start_params[nparams - 2:],
correlated=False)
#Reset function
self._func = self._corr
self._args = (nstates, 0)
self._grad_args = (nstates, 0)
self._hess_args = (nstates, 0)
#plot_dots(self._xdata, self._ydata, self._edata)
#plt.yscale('log')
return start_params
def perform_fit(self, xmin, xmax):
lg.info(
"=========================================================================="
)
lg.info("Fitrange [ %d, %d ]" % (xmin, xmax))
self._ranges.append([xmin, xmax])
start_params_array = self._get_start_params_array(xmin, xmax)
all_res = []
all_chi_dof = []
for (start_params, text) in start_params_array:
lg.info("\n--------------------------------------")
lg.info("Run with start parameters from", text, "\n")
res = self.fit(xmin, xmax, start_params)
all_chi_dof.append(res[2])
all_res.append(res)
# Find smallest chi^2
min_ind = np.argmin(all_chi_dof)
lg.info("\n--------------------------------------")
lg.info("Choose fit with start parameters from",
start_params_array[min_ind][1], "\n")
res, res_err, chi_dof, aicc, pcov = all_res[min_ind]
print_res("Final fit_res for xmin = %d, xmax = %d" % (xmin, xmax),
res,
res_err,
chi_dof,
level="INFO")
print_scl("AICc", aicc, level="INFO")
self._res.append(res)
self._res_err.append(res_err)
self._pcov.append(pcov)
self._chi_dof.append(chi_dof)
self._aicc.append(aicc)
lg.info()
return res, res_err, chi_dof, aicc
def corr_fit(self,
xmin=-np.inf,
xmax=np.inf,
start_params=None,
nstates=None,
nstates_osc=None,
correlated=None,
priorsigma=None,
priorval=None):
if nstates == 0:
raise ValueError("Require at least one non-oscillating state")
if nstates is None:
nstates = self._nstates
if nstates_osc is None:
nstates_osc = self._nstates_osc
if correlated is None:
correlated = self._cov_avail
#To estimate parameters we usually perform a non-correlated fit before the actual
#correlated fit. This is not neccessary if we already get start parameters.
#However, for an oscillating fit is is reasonable to perform a non correlated fit
#in any case. This is because start parameter estimation is usually performed outside
#for oscillating fits.
if correlated and start_params is not None:
if nstates_osc > 0:
skip_uncorr = False
else:
skip_uncorr = True
else:
skip_uncorr = False
try:
start_params, priorval, priorsigma = self.init_start_params(
xmin, xmax, start_params, priorval, priorsigma, nstates,
nstates_osc)
except Exception as e:
lg.info("Failed to estimate start parameters. Try direct fit")
lg.details("Error was", e)
if lg.isLevel("DEBUG"):
traceback.print_exc()
start_params = None
#Save the states of the last fit. This must be ensured, even if the parameter
#estimation fails.
finally:
self._nstates = nstates
self._nstates_osc = nstates_osc
print_res("Start parameters for %d + %d fit" % (nstates, nstates_osc),
start_params,
level="INFO")
if not skip_uncorr:
res, res_err, chi_dof, aicc, pcov = self.simple_corr_fit(
xmin,
xmax,
start_params,
correlated=False,
priorval=priorval,
priorsigma=priorsigma,
nstates=nstates,
nstates_osc=nstates_osc)
start_params = np.copy(res)
self._change_order(res, res_err, nstates, nstates_osc)
res, res_err = self.remove_mult_const(res, res_err)
pcov = self.remove_mult_const_pcov(pcov)
lg.info()
print_res("Fit result for uncorrelated %d + %d fit" %
(nstates, nstates_osc),
res,
res_err,
chi_dof,
level="INFO")
print_scl("AICc", aicc, level='INFO')
if correlated:
if not self._cov_avail:
raise NotAvailableError("Covariance matrix is not available")
res, res_err, chi_dof, aicc, pcov = self.simple_corr_fit(
xmin,
xmax,
start_params=start_params,
correlated=True,
priorval=priorval,
priorsigma=priorsigma,
nstates=nstates,
nstates_osc=nstates_osc)
self._change_order(res, res_err, nstates, nstates_osc)
res, res_err = self.remove_mult_const(res, res_err)
pcov = self.remove_mult_const_pcov(pcov)
lg.info()
print_res("Fit result for correlated %d + %d fit" %
(nstates, nstates_osc),
res,
res_err,
chi_dof,
level="INFO")
print_scl("AICc", aicc)
return res, res_err, chi_dof, aicc, pcov