/
test_tf_misfit.py
294 lines (254 loc) · 11.2 KB
/
test_tf_misfit.py
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
#!/usr/bin/env python
# -*- coding: utf-8 -*-
"""
The tf_misfit test suite.
"""
import numpy as np
import pytest
from scipy.signal import hilbert
import matplotlib.pyplot as plt
from obspy.signal.tf_misfit import (eg, em, feg, fem, fpg, fpm, pg, pm, teg,
tem, tfeg, tfem, tfpg, tfpm, tpg, tpm)
from obspy.signal.tf_misfit import plot_tfr, plot_tf_misfits, plot_tf_gofs
class TestTf:
"""
Test cases for tf functions.
"""
@pytest.fixture(scope='class')
def state(self):
"""Return a dict with state needed to run tests."""
tmax = 3.
npts = 60
dt = tmax / (npts - 1)
fmin = 1.
fmax = 3.
nf = 3
# Constants for s1
a1 = 4.
t1 = .1
f1 = 2.
phi1 = 0.
# Constants for s1t and s1a
ps = 0.1
a1a = a1 * 1.1
t = np.linspace(0., tmax, npts)
f = np.logspace(np.log10(fmin), np.log10(fmax), nf)
def h(t):
return (np.sign(t) + 1) / 2
def s1(t):
return a1 * (t - t1) * np.exp(-2 * (t - t1)) * \
np.cos(2. * np.pi * f1 * (t - t1) + phi1 * np.pi) * h(t - t1)
# generate analytical signal (hilbert transform) and add phase shift
s1h = hilbert(s1(t))
s1p = np.real(
np.abs(s1h) * np.exp(np.angle(s1h) * 1j + ps * np.pi * 1j))
# signal with amplitude error
def s1a(t):
return a1a * (t - t1) * np.exp(-2 * (t - t1)) * \
np.cos(2. * np.pi * f1 * (t - t1) + phi1 * np.pi) * h(t - t1)
out = dict(
s1=s1,
s1p=s1p,
s1a=s1a,
t=t,
f=f,
dt=dt,
fmin=fmin,
fmax=fmax,
nf=nf,
npts=npts,
w0=6
)
return out
def test_phase_misfit(self, state, testdata):
"""
Tests all tf misfits with a signal that has phase misfit
"""
s1 = state['s1']
s1p = state['s1p']
t = state['t']
dt = state['dt']
fmin = state['fmin']
fmax = state['fmax']
nf = state['nf']
tfem_11p_ref = np.loadtxt(testdata['TFEM_11p.dat'])
tfpm_11p_ref = np.loadtxt(testdata['TFPM_11p.dat'])
tem_11p_ref = np.loadtxt(testdata['TEM_11p.dat'])
fem_11p_ref = np.loadtxt(testdata['FEM_11p.dat'])
fpm_11p_ref = np.loadtxt(testdata['FPM_11p.dat'])
tpm_11p_ref = np.loadtxt(testdata['TPM_11p.dat'])
em_11p_ref = np.loadtxt(testdata['EM_11p.dat'])
pm_11p_ref = np.loadtxt(testdata['PM_11p.dat'])
tfem_11p = tfem(s1p, s1(t), dt=dt, fmin=fmin, fmax=fmax, nf=nf)
tfpm_11p = tfpm(s1p, s1(t), dt=dt, fmin=fmin, fmax=fmax, nf=nf)
tem_11p = tem(s1p, s1(t), dt=dt, fmin=fmin, fmax=fmax, nf=nf)
fem_11p = fem(s1p, s1(t), dt=dt, fmin=fmin, fmax=fmax, nf=nf)
fpm_11p = fpm(s1p, s1(t), dt=dt, fmin=fmin, fmax=fmax, nf=nf)
tpm_11p = tpm(s1p, s1(t), dt=dt, fmin=fmin, fmax=fmax, nf=nf)
em_11p = em(s1p, s1(t), dt=dt, fmin=fmin, fmax=fmax, nf=nf)
pm_11p = pm(s1p, s1(t), dt=dt, fmin=fmin, fmax=fmax, nf=nf)
tol = 1e-5
atol_min = 1e-15
assert np.allclose(tfem_11p, tfem_11p_ref, rtol=tol,
atol=np.abs(tfem_11p_ref).max() * tol + atol_min)
assert np.allclose(tfpm_11p, tfpm_11p_ref, rtol=tol,
atol=np.abs(tfpm_11p_ref).max() * tol + atol_min)
assert np.allclose(tem_11p, tem_11p_ref, rtol=tol,
atol=np.abs(tem_11p_ref).max() * tol + atol_min)
assert np.allclose(fem_11p, fem_11p_ref, rtol=tol,
atol=np.abs(fem_11p_ref).max() * tol + atol_min)
assert np.allclose(fpm_11p, fpm_11p_ref, rtol=tol,
atol=np.abs(fpm_11p_ref).max() * tol + atol_min)
assert np.allclose(tpm_11p, tpm_11p_ref, rtol=tol,
atol=np.abs(tpm_11p_ref).max() * tol + atol_min)
assert np.allclose(em_11p, em_11p_ref, rtol=tol,
atol=np.abs(em_11p_ref).max() * tol + atol_min)
assert np.allclose(pm_11p, pm_11p_ref, rtol=tol,
atol=np.abs(pm_11p_ref).max() * tol + atol_min)
# keeping the save commands in case the files need to be updated
# np.savetxt(self.path + os.sep + 'TFEM_11p.dat', TFEM_11p,
# fmt='%1.5e')
# np.savetxt(self.path + os.sep + 'TFPM_11p.dat', TFPM_11p,
# fmt='%1.5e')
# np.savetxt(self.path + os.sep + 'TEM_11p.dat', TEM_11p, fmt='%1.5e')
# np.savetxt(self.path + os.sep + 'FEM_11p.dat', FEM_11p, fmt='%1.5e')
# np.savetxt(self.path + os.sep + 'FPM_11p.dat', FPM_11p, fmt='%1.5e')
# np.savetxt(self.path + os.sep + 'TPM_11p.dat', TPM_11p, fmt='%1.5e')
# np.savetxt(self.path + os.sep + 'EM_11p.dat', (EM_11p,), fmt='%1.5e')
# np.savetxt(self.path + os.sep + 'PM_11p.dat', (PM_11p,), fmt='%1.5e')
def test_envelope_misfit(self, state, testdata):
"""
Tests all tf misfits with a signal that has envelope misfit
"""
s1 = state['s1']
s1a = state['s1a']
t = state['t']
dt = state['dt']
fmin = state['fmin']
fmax = state['fmax']
nf = state['nf']
tfem_11a_ref = np.loadtxt(testdata['TFEM_11a.dat'])
tfpm_11a_ref = np.loadtxt(testdata['TFPM_11a.dat'])
tem_11a_ref = np.loadtxt(testdata['TEM_11a.dat'])
fem_11a_ref = np.loadtxt(testdata['FEM_11a.dat'])
fpm_11a_ref = np.loadtxt(testdata['FPM_11a.dat'])
tpm_11a_ref = np.loadtxt(testdata['TPM_11a.dat'])
em_11a_ref = np.loadtxt(testdata['EM_11a.dat'])
pm_11a_ref = np.loadtxt(testdata['PM_11a.dat'])
tfem_11a = tfem(s1a(t), s1(t), dt=dt, fmin=fmin, fmax=fmax, nf=nf)
tfpm_11a = tfpm(s1a(t), s1(t), dt=dt, fmin=fmin, fmax=fmax, nf=nf)
tem_11a = tem(s1a(t), s1(t), dt=dt, fmin=fmin, fmax=fmax, nf=nf)
tpm_11a = tpm(s1a(t), s1(t), dt=dt, fmin=fmin, fmax=fmax, nf=nf)
fem_11a = fem(s1a(t), s1(t), dt=dt, fmin=fmin, fmax=fmax, nf=nf)
fpm_11a = fpm(s1a(t), s1(t), dt=dt, fmin=fmin, fmax=fmax, nf=nf)
em_11a = em(s1a(t), s1(t), dt=dt, fmin=fmin, fmax=fmax, nf=nf)
pm_11a = pm(s1a(t), s1(t), dt=dt, fmin=fmin, fmax=fmax, nf=nf)
tol = 1e-5
atol_min = 1e-15
assert np.allclose(tfem_11a, tfem_11a_ref, rtol=tol,
atol=np.abs(tfem_11a_ref).max() * tol + atol_min)
assert np.allclose(tfpm_11a, tfpm_11a_ref, rtol=tol,
atol=np.abs(tfpm_11a_ref).max() * tol + atol_min)
assert np.allclose(tem_11a, tem_11a_ref, rtol=tol,
atol=np.abs(tem_11a_ref).max() * tol + atol_min)
assert np.allclose(fem_11a, fem_11a_ref, rtol=tol,
atol=np.abs(fem_11a_ref).max() * tol + atol_min)
assert np.allclose(fpm_11a, fpm_11a_ref, rtol=tol,
atol=np.abs(fpm_11a_ref).max() * tol + atol_min)
assert np.allclose(tpm_11a, tpm_11a_ref, rtol=tol,
atol=np.abs(tpm_11a_ref).max() * tol + atol_min)
assert np.allclose(em_11a, em_11a_ref, rtol=tol,
atol=np.abs(em_11a_ref).max() * tol + atol_min)
assert np.allclose(pm_11a, pm_11a_ref, rtol=tol,
atol=np.abs(pm_11a_ref).max() * tol + atol_min)
# keeping the save commands in case the files need to be updated
# np.savetxt(self.path + os.sep + 'TFEM_11a.dat', TFEM_11a,
# fmt='%1.5e')
# np.savetxt(self.path + os.sep + 'TFPM_11a.dat', TFPM_11a,
# fmt='%1.5e')
# np.savetxt(self.path + os.sep + 'TEM_11a.dat', TEM_11a, fmt='%1.5e')
# np.savetxt(self.path + os.sep + 'FEM_11a.dat', FEM_11a, fmt='%1.5e')
# np.savetxt(self.path + os.sep + 'FPM_11a.dat', FPM_11a, fmt='%1.5e')
# np.savetxt(self.path + os.sep + 'TPM_11a.dat', TPM_11a, fmt='%1.5e')
# np.savetxt(self.path + os.sep + 'EM_11a.dat', (EM_11a,), fmt='%1.5e')
# np.savetxt(self.path + os.sep + 'PM_11a.dat', (PM_11a,), fmt='%1.5e')
def test_envelope_gof(self, state):
"""
Tests all tf gofs
"""
s1 = state['s1']
t = state['t']
dt = state['dt']
fmin = state['fmin']
fmax = state['fmax']
nf = state['nf']
npts = state['npts']
tol = 1e-5
_tfeg = tfeg(s1(t), s1(t), dt=dt, fmin=fmin, fmax=fmax, nf=nf)
_tfpg = tfpg(s1(t), s1(t), dt=dt, fmin=fmin, fmax=fmax, nf=nf)
_teg = teg(s1(t), s1(t), dt=dt, fmin=fmin, fmax=fmax, nf=nf)
_tpg = tpg(s1(t), s1(t), dt=dt, fmin=fmin, fmax=fmax, nf=nf)
_feg = feg(s1(t), s1(t), dt=dt, fmin=fmin, fmax=fmax, nf=nf)
_fpg = fpg(s1(t), s1(t), dt=dt, fmin=fmin, fmax=fmax, nf=nf)
_eg = eg(s1(t), s1(t), dt=dt, fmin=fmin, fmax=fmax, nf=nf)
_pg = pg(s1(t), s1(t), dt=dt, fmin=fmin, fmax=fmax, nf=nf)
assert np.allclose(_tfeg, np.ones((nf, npts)) * 10., rtol=tol)
assert np.allclose(_tfpg, np.ones((nf, npts)) * 10., rtol=tol)
assert np.allclose(_teg, np.ones(npts) * 10., rtol=tol)
assert np.allclose(_tpg, np.ones(npts) * 10., rtol=tol)
assert np.allclose(_feg, np.ones(nf) * 10., rtol=tol)
assert np.allclose(_fpg, np.ones(nf) * 10., rtol=tol)
assert np.allclose(_eg, 10., rtol=tol)
assert np.allclose(_pg, 10., rtol=tol)
class TestTfPlot:
"""
Test cases for tf plot functions.
"""
@pytest.fixture(scope='class')
def state(self):
"""return state for testing."""
from obspy.core.util import AttribDict
out = AttribDict()
# general constants
tmax = 6.
out.dt = 0.01
npts = int(tmax / out.dt + 1)
t = np.linspace(0., tmax, npts)
out.fmin = .5
out.fmax = 10
# constants for the signal
a1 = 4.
t1 = 2.
f1 = 2.
phi1 = 0.
# amplitude and phase error
phase_shift = 0.1
amp_fac = 1.2
# generate the signal
h1 = (np.sign(t - t1) + 1) / 2
out.st1 = a1 * (t - t1) * np.exp(-2 * (t - t1))
out.st1 *= np.cos(2. * np.pi * f1 * (t - t1) + phi1 * np.pi) * h1
# reference signal
out.st2 = out.st1.copy()
# generate analytical signal (hilbert transform) and add phase shift
out.st1p = hilbert(out.st1)
out.st1p = np.real(
np.abs(out.st1p) *
np.exp((np.angle(out.st1p) + phase_shift * np.pi) * 1j))
# signal with amplitude error
out.st1p /= amp_fac
return out
def test_plot_tfr(self, state, ignore_numpy_errors, image_path):
n = 295
t, dt = np.linspace(0., 20 * np.pi, n, retstep=True)
sig = np.sin(t)
plot_tfr(sig, dt=dt, show=False)
plt.savefig(image_path)
def test_plot_tf_misfits(self, image_path, ignore_numpy_errors, state):
plot_tf_misfits(state.st1p, state.st2, dt=state.dt,
fmin=state.fmin, fmax=state.fmax, show=False)
plt.savefig(image_path)
def test_plot_tf_gofs(self, state, ignore_numpy_errors, image_path):
plot_tf_gofs(state.st1p, state.st2, dt=state.dt, fmin=state.fmin,
fmax=state.fmax, show=False)
plt.savefig(image_path)