https://github.com/lmfit/lmfit-py
Tip revision: 28d13f3eb30aaf875e94655fd7fb0d5aa84b32e6 authored by Matt Newville on 06 March 2017, 22:42:38 UTC
Merge pull request #403 from lmfit/096_rc1_prep
Merge pull request #403 from lmfit/096_rc1_prep
Tip revision: 28d13f3
test_basicfit.py
import numpy as np
from lmfit import minimize, Parameters, Parameter, report_fit
from lmfit_testutils import assert_paramval, assert_paramattr
def test_basic():
# create data to be fitted
x = np.linspace(0, 15, 301)
data = (5. * np.sin(2 * x - 0.1) * np.exp(-x*x*0.025) +
np.random.normal(size=len(x), scale=0.2) )
# define objective function: returns the array to be minimized
def fcn2min(params, x, data):
""" model decaying sine wave, subtract data"""
amp = params['amp']
shift = params['shift']
omega = params['omega']
decay = params['decay']
model = amp * np.sin(x * omega + shift) * np.exp(-x*x*decay)
return model - data
# create a set of Parameters
params = Parameters()
params.add('amp', value= 10, min=0)
params.add('decay', value= 0.1)
params.add('shift', value= 0.0, min=-np.pi/2., max=np.pi/2)
params.add('omega', value= 3.0)
# do fit, here with leastsq model
result = minimize(fcn2min, params, args=(x, data))
# calculate final result
final = data + result.residual
# report_fit(result)
assert(result.nfev > 5)
assert(result.nfev < 500)
assert(result.chisqr > 1)
assert(result.nvarys == 4)
assert_paramval(result.params['amp'], 5.03, tol=0.05)
assert_paramval(result.params['omega'], 2.0, tol=0.05)
if __name__ == '__main__':
test_basic()