def test():
from sito import read
from obspy.signal.freqattributes import mper #, welch
#from mtspec import mtspec
ms = read('/home/richter/Data/Parkfield/raw/PKD_1996_296.mseed')
#ms.plotTrace()
print ms[0].stats
# -*- snip -*-
data = ms[0].data
data = data - np.mean(data)
#data -= np.linspace(0,1,len(data))*(data[-1]-data[0])+data[0]
N = len(data)
df = 1. / (ms[0].stats.endtime - ms[0].stats.starttime)
print N // 2 * df
spec1 = mper(data, cosTaper(N, 0.05), nextpow2(N))[:N // 2]
#spec2 = welch(data, cosTaper(N, 0.05), nextpow2(N), len(data)/10, 0.2)[:N//2]
spec1_d = oct_downsample(spec1, df, fac=1.3)
freq1 = get_octfreqs(len(spec1_d), df, fac=1.3)
ax = plot_psd(spec1, log=True)
ax = plot_psd(spec1_d, freq1, log=True, ax=ax)
plt.show()
def test():
from sito import read
from obspy.signal.freqattributes import mper # , welch
# from mtspec import mtspec
ms = read("/home/richter/Data/Parkfield/raw/PKD_1996_296.mseed")
# ms.plotTrace()
print ms[0].stats
# -*- snip -*-
data = ms[0].data
data = data - np.mean(data)
# data -= np.linspace(0,1,len(data))*(data[-1]-data[0])+data[0]
N = len(data)
df = 1.0 / (ms[0].stats.endtime - ms[0].stats.starttime)
print N // 2 * df
spec1 = mper(data, cosTaper(N, 0.05), nextpow2(N))[: N // 2]
# spec2 = welch(data, cosTaper(N, 0.05), nextpow2(N), len(data)/10, 0.2)[:N//2]
spec1_d = oct_downsample(spec1, df, fac=1.3)
freq1 = get_octfreqs(len(spec1_d), df, fac=1.3)
ax = plot_psd(spec1, log=True)
ax = plot_psd(spec1_d, freq1, log=True, ax=ax)
plt.show()
def check_and_phase_shift(trace):
# print trace
taper_length = 20.0
if trace.stats.npts < 4 * taper_length*trace.stats.sampling_rate:
trace.data = np.zeros(trace.stats.npts)
return trace
dt = np.mod(trace.stats.starttime.datetime.microsecond*1.0e-6,
trace.stats.delta)
if (trace.stats.delta - dt) <= np.finfo(float).eps:
dt = 0
if dt != 0:
if dt <= (trace.stats.delta / 2.):
dt = -dt
# direction = "left"
else:
dt = (trace.stats.delta - dt)
# direction = "right"
trace.detrend(type="demean")
trace.detrend(type="simple")
taper_1s = taper_length * float(trace.stats.sampling_rate) / trace.stats.npts
cp = cosTaper(trace.stats.npts, taper_1s)
trace.data *= cp
n = int(2**nextpow2(len(trace.data)))
FFTdata = scipy.fftpack.fft(trace.data, n=n)
fftfreq = scipy.fftpack.fftfreq(n, d=trace.stats.delta)
FFTdata = FFTdata * np.exp(1j * 2. * np.pi * fftfreq * dt)
trace.data = np.real(scipy.fftpack.ifft(FFTdata, n=n)[:len(trace.data)])
trace.stats.starttime += dt
return trace
else:
return trace
def fft_taper(data):
"""
Cosine taper, 10 percent at each end (like done by [McNamara2004]_).
.. warning::
Inplace operation, so data should be float.
"""
data *= cosTaper(len(data), 0.2)
return data
def fft_taper(data):
"""
Cosine taper, 10 percent at each end (like done by [McNamara2004]_).
.. warning::
Inplace operation, so data should be float.
"""
data *= cosTaper(len(data), 0.2)
return data
def stream_taper(st):
"""
Applies cosine taper to a stream (iterates over all available traces).
:param st: Input stream, processed in place
:type st: An obspy.stream object
"""
for tr in st:
try:
mytaper = cosTaper(tr.stats.npts)
t_tr = mytaper * (tr.data)
except ValueError:
logging.warn('Trace is too short for tapering - multiplying by 0\
instead')
t_tr = 0.0 * (tr.data)
tr.data = t_tr
return st
def stream_taper(st):
"""
Applies cosine taper to a stream (iterates over all available traces).
:param st: Input stream, processed in place
:type st: An obspy.stream object
"""
for tr in st:
try:
mytaper = cosTaper(tr.stats.npts)
t_tr = mytaper*(tr.data)
except ValueError:
logging.warn('Trace is too short for tapering - multiplying by 0\
instead')
t_tr = 0.0*(tr.data)
tr.data = t_tr
return st
def convSTF(st, sigma=30.):
gauss = lambda (t, s): 1. / (2. * np.pi * s**2.)**.5 \
* np.exp(-1*(t**2)/(2*(s**2)))
df = st[0].stats.sampling_rate
dt = 1./df
t = np.linspace(0., sigma * 20., sigma * 20 * df + 1)
stf = gauss((t-sigma*10, sigma))
nstf = len(stf)
for tr in st:
tr.data *= cosTaper(len(tr.data), p=0.05)
nfft = util.nextpow2(max(nstf, tr.stats.npts)) * 2
stff = np.fft.rfft(stf, n=nfft) * dt
trf = np.fft.rfft(tr, n=nfft) * dt
tr.data = np.fft.irfft(stff * trf)[sigma*10*df:sigma*10*df+len(tr.data)] * df
return 1
def xcorrPickCorrection(pick1, trace1, pick2, trace2, t_before, t_after,
cc_maxlag, filter=None, filter_options={}, plot=False,
filename=None):
"""
Calculate the correction for the differential pick time determined by cross
correlation of the waveforms in narrow windows around the pick times.
For details on the fitting procedure refer to [Deichmann1992]_.
The parameters depend on the epicentral distance and magnitude range. For
small local earthquakes (Ml ~0-2, distance ~3-10 km) with consistent manual
picks the following can be tried::
t_before=0.05, t_after=0.2, cc_maxlag=0.10,
filter="bandpass", filter_options={'filter_low': 1, 'filter_high': 20}
The appropriate parameter sets can and should be determined/verified
visually using the option `show=True` on a representative set of picks.
To get the corrected differential pick time calculate: ``((pick2 +
pick2_corr) - pick1)``. To get a corrected differential travel time using
origin times for both events calculate: ``((pick2 + pick2_corr - ot2) -
(pick1 - ot1))``
:type pick1: :class:`~obspy.core.utcdatetime.UTCDateTime`
:param pick1: Time of pick for `trace1`.
:type trace1: :class:`~obspy.core.trace.Trace`
:param trace1: Waveform data for `pick1`. Add some time at front/back.
The appropriate part of the trace is used automatically.
:type pick2: :class:`~obspy.core.utcdatetime.UTCDateTime`
:param pick2: Time of pick for `trace2`.
:type trace2: :class:`~obspy.core.trace.Trace`
:param trace2: Waveform data for `pick2`. Add some time at front/back.
The appropriate part of the trace is used automatically.
:type t_before: float
:param t_before: Time to start cross correlation window before pick times
in seconds.
:type t_after: float
:param t_after: Time to end cross correlation window after pick times in
seconds.
:type cc_maxlag: float
:param cc_maxlag: Maximum lag time tested during cross correlation in
seconds.
:type filter: string
:param filter: None for no filtering or name of filter type
as passed on to :meth:`~obspy.core.Trace.trace.filter` if filter
should be used. To avoid artifacts in filtering provide
sufficiently long time series for `trace1` and `trace2`.
:type filter_options: dict
:param filter_options: Filter options that get passed on to
:meth:`~obspy.core.Trace.trace.filter` if filtering is used.
:type plot: bool
:param plot: Determines if pick is refined automatically (default, ""),
if an informative matplotlib plot is shown ("plot"), or if an
interactively changeable PyQt Window is opened ("interactive").
:type filename: string
:param filename: If plot option is selected, specifying a filename here
(e.g. 'myplot.pdf' or 'myplot.png') will output the plot to a file
instead of opening a plot window.
:rtype: (float, float)
:returns: Correction time `pick2_corr` for `pick2` pick time as a float and
corresponding correlation coefficient.
"""
# perform some checks on the traces
if trace1.stats.sampling_rate != trace2.stats.sampling_rate:
msg = "Sampling rates do not match: %s != %s" % \
(trace1.stats.sampling_rate, trace2.stats.sampling_rate)
raise Exception(msg)
if trace1.id != trace2.id:
msg = "Trace ids do not match: %s != %s" % (trace1.id, trace2.id)
warnings.warn(msg)
samp_rate = trace1.stats.sampling_rate
# check data, apply filter and take correct slice of traces
slices = []
for _i, (t, tr) in enumerate(((pick1, trace1), (pick2, trace2))):
start = t - t_before - (cc_maxlag / 2.0)
end = t + t_after + (cc_maxlag / 2.0)
duration = end - start
# check if necessary time spans are present in data
if tr.stats.starttime > start:
msg = "Trace %s starts too late." % _i
raise Exception(msg)
if tr.stats.endtime < end:
msg = "Trace %s ends too early." % _i
raise Exception(msg)
if filter and start - tr.stats.starttime < duration:
msg = "Artifacts from signal processing possible. Trace " + \
"%s should have more additional data at the start." % _i
warnings.warn(msg)
if filter and tr.stats.endtime - end < duration:
msg = "Artifacts from signal processing possible. Trace " + \
"%s should have more additional data at the end." % _i
warnings.warn(msg)
# apply signal processing and take correct slice of data
if filter:
tr.data = tr.data.astype("float64")
tr.detrend(type='demean')
tr.data *= cosTaper(len(tr), 0.1)
tr.filter(type=filter, **filter_options)
slices.append(tr.slice(start, end))
# cross correlate
shift_len = int(cc_maxlag * samp_rate)
_cc_shift, cc_max, cc = xcorr(slices[0].data, slices[1].data,
shift_len, full_xcorr=True)
cc_curvature = np.concatenate((np.zeros(1), np.diff(cc, 2), np.zeros(1)))
cc_convex = np.ma.masked_where(np.sign(cc_curvature) >= 0, cc)
cc_concave = np.ma.masked_where(np.sign(cc_curvature) < 0, cc)
# check results of cross correlation
if cc_max < 0:
msg = "Absolute maximum is negative: %.3f. " % cc_max + \
"Using positive maximum: %.3f" % max(cc)
warnings.warn(msg)
cc_max = max(cc)
if cc_max < 0.8:
msg = "Maximum of cross correlation lower than 0.8: %s" % cc_max
warnings.warn(msg)
# make array with time shifts in seconds corresponding to cc function
cc_t = np.linspace(-cc_maxlag, cc_maxlag, shift_len * 2 + 1)
# take the subportion of the cross correlation around the maximum that is
# convex and fit a parabola.
# use vertex as subsample resolution best cc fit.
peak_index = cc.argmax()
first_sample = peak_index
# XXX this could be improved..
while first_sample > 0 and cc_curvature[first_sample - 1] <= 0:
first_sample -= 1
last_sample = peak_index
while last_sample < len(cc) - 1 and cc_curvature[last_sample + 1] <= 0:
last_sample += 1
if first_sample == 0 or last_sample == len(cc) - 1:
msg = "Fitting at maximum lag. Maximum lag time should be increased."
warnings.warn(msg)
# work on subarrays
num_samples = last_sample - first_sample + 1
if num_samples < 3:
msg = "Less than 3 samples selected for fit to cross " + \
"correlation: %s" % num_samples
raise Exception(msg)
if num_samples < 5:
msg = "Less than 5 samples selected for fit to cross " + \
"correlation: %s" % num_samples
warnings.warn(msg)
# quadratic fit for small subwindow
coeffs, residual = scipy.polyfit(
cc_t[first_sample:last_sample + 1],
cc[first_sample:last_sample + 1], deg=2, full=True)[:2]
# check results of fit
if coeffs[0] >= 0:
msg = "Fitted parabola opens upwards!"
warnings.warn(msg)
if residual > 0.1:
msg = "Residual in quadratic fit to cross correlation maximum " + \
"larger than 0.1: %s" % residual
warnings.warn(msg)
# X coordinate of vertex of parabola gives time shift to correct
# differential pick time. Y coordinate gives maximum correlation
# coefficient.
dt = -coeffs[1] / 2.0 / coeffs[0]
coeff = (4 * coeffs[0] * coeffs[2] - coeffs[1] ** 2) / (4 * coeffs[0])
# this is the shift to apply on the time axis of `trace2` to align the
# traces. Actually we do not want to shift the trace to align it but we
# want to correct the time of `pick2` so that the traces align without
# shifting. This is the negative of the cross correlation shift.
dt = -dt
pick2_corr = dt
# plot the results if selected
if plot is True:
import matplotlib
if filename:
matplotlib.use('agg')
import matplotlib.pyplot as plt
fig = plt.figure()
ax1 = fig.add_subplot(211)
tmp_t = np.linspace(0, len(slices[0]) / samp_rate, len(slices[0]))
ax1.plot(tmp_t, slices[0].data / float(slices[0].data.max()), "k",
label="Trace 1")
ax1.plot(tmp_t, slices[1].data / float(slices[1].data.max()), "r",
label="Trace 2")
ax1.plot(tmp_t - dt, slices[1].data / float(slices[1].data.max()), "g",
label="Trace 2 (shifted)")
ax1.legend(loc="lower right", prop={'size': "small"})
ax1.set_title("%s" % slices[0].id)
ax1.set_xlabel("time [s]")
ax1.set_ylabel("norm. amplitude")
ax2 = fig.add_subplot(212)
ax2.plot(cc_t, cc_convex, ls="", marker=".", c="k",
label="xcorr (convex)")
ax2.plot(cc_t, cc_concave, ls="", marker=".", c="0.7",
label="xcorr (concave)")
ax2.plot(cc_t[first_sample:last_sample + 1],
cc[first_sample:last_sample + 1], "b.",
label="used for fitting")
tmp_t = np.linspace(cc_t[first_sample], cc_t[last_sample],
num_samples * 10)
ax2.plot(tmp_t, scipy.polyval(coeffs, tmp_t), "b", label="fit")
ax2.axvline(-dt, color="g", label="vertex")
ax2.axhline(coeff, color="g")
ax2.set_xlabel("%.2f at %.3f seconds correction" % (coeff, -dt))
ax2.set_ylabel("correlation coefficient")
ax2.set_ylim(-1, 1)
ax2.legend(loc="lower right", prop={'size': "x-small"})
#plt.legend(loc="lower left")
if filename:
fig.savefig(fname=filename)
else:
plt.show()
return (pick2_corr, coeff)
def mwcs(ccCurrent, ccReference, fmin, fmax, sampRate, tmin, windL, step):
"""...
Parameters
----------
ccCurrent : numpy.ndarray
The "Current" timeseries
ccReference : numpy.ndarray
The "Reference" timeseries
fmin : int
The lower frequency bound to compute the dephasing
fmax : int
The higher frequency bound to compute the dephasing
sampRate : int
The sample rate of the input timeseries
tmin : int
The leftmost time lag (used to compute the "time lags array")
windL : int
The moving window length
step : int
The step to jump for the moving window
Returns
-------
data : numpy.ndarray
Taxis,deltaT,deltaErr,deltaMcoh"""
windL = np.int(windL*sampRate)
step = np.int(step*sampRate)
count = 0
deltaT = []
deltaErr = []
deltaMcoh = []
Taxis = []
padd = 2**(nextpow2(windL)+1)
tp = cosTaper(windL, 0.02)
timeaxis = (np.arange(len(ccCurrent)) / float(sampRate))+tmin
minind = 0
maxind = windL
while maxind <= len(ccCurrent):
ind = minind
cci = ccCurrent[ind:(ind+windL)].copy()
cci -= np.mean(cci)
cci *= tp
cri = ccReference[ind:(ind+windL)].copy()
cri -= np.mean(cri)
cri *= tp
Fcur = scipy.fftpack.fft(cci, n=int(padd))[:padd/2]
Fref = scipy.fftpack.fft(cri, n=int(padd))[:padd/2]
Fcur2 = np.real(Fcur)**2 + np.imag(Fcur)**2
Fref2 = np.real(Fref)**2 + np.imag(Fref)**2
dcur = np.sqrt(smooth(Fcur2, window='hanning'))
dref = np.sqrt(smooth(Fref2, window='hanning'))
#Calculate the cross-spectrum
X = Fref*(Fcur.conj())
X = smooth(X, window='hanning')
dcs = np.abs(X)
#Find the values the frequency range of interest
freqVec = scipy.fftpack.fftfreq(len(X)*2, 1./sampRate)[:padd/2]
indRange = np.argwhere(np.logical_and(freqVec >= fmin,
freqVec <= fmax))
# Get Coherence and its mean value
coh = getCoherence(dcs, dref, dcur)
mcoh = np.mean(coh[indRange])
#Get Weights
w = 1.0 / (1.0 / (coh[indRange]**2) - 1.0)
w[coh[indRange] >= 0.99] = 1.0 / (1.0 / 0.9801 - 1.0)
w = np.sqrt(w * np.sqrt(dcs[indRange]))
# w /= (np.sum(w)/len(w)) #normalize
w = np.real(w)
#Frequency array:
v = np.real(freqVec[indRange]) * 2 * np.pi
# vo = np.real(freqVec) * 2 * np.pi
#Phase:
phi = np.angle(X)
phi[0] = 0
phi = np.unwrap(phi)
# print phi[0]
# phio = phi
phi = phi[indRange]
#Calculate the slope with a weighted least square linear regression
#forced through the origin
#weights for the WLS must be the variance !
res = sm.regression.linear_model.WLS(phi, v, w**2).fit()
m = np.real(res.params[0])
deltaT.append(m)
# print phi.shape, v.shape, w.shape
e = np.sum((phi-m*v)**2) / (np.size(v)-1)
s2x2 = np.sum(v**2 * w**2)
sx2 = np.sum(w * v**2)
e = np.sqrt(e*s2x2 / sx2**2)
# print w.shape
# plt.plot(vo, phio)
# plt.scatter(v,phi,c=w)
# plt.plot(vo,vo*m)
# plt.xlim(-1,10)
# plt.ylim(-5,5)
# plt.show()
deltaErr.append(e)
# print m, e, res.bse[0]
deltaMcoh.append(np.real(mcoh))
Taxis.append(timeaxis[ind + windL/2])
count = count + 1
minind += step
maxind += step
del Fcur, Fref
del X
del freqVec
del indRange
del w, v, e, s2x2
del res
if maxind > len(ccCurrent)+step:
logging.warning("The last window was too small, but was computed")
return np.array([Taxis, deltaT, deltaErr, deltaMcoh]).T
def xcorrPickCorrection(pick1,
trace1,
pick2,
trace2,
t_before,
t_after,
cc_maxlag,
filter=None,
filter_options={},
plot=False,
filename=None):
"""
Calculate the correction for the differential pick time determined by cross
correlation of the waveforms in narrow windows around the pick times.
For details on the fitting procedure refer to [Deichmann1992]_.
The parameters depend on the epicentral distance and magnitude range. For
small local earthquakes (Ml ~0-2, distance ~3-10 km) with consistent manual
picks the following can be tried::
t_before=0.05, t_after=0.2, cc_maxlag=0.10,
filter="bandpass", filter_options={'freqmin': 1, 'freqmax': 20}
The appropriate parameter sets can and should be determined/verified
visually using the option `show=True` on a representative set of picks.
To get the corrected differential pick time calculate: ``((pick2 +
pick2_corr) - pick1)``. To get a corrected differential travel time using
origin times for both events calculate: ``((pick2 + pick2_corr - ot2) -
(pick1 - ot1))``
:type pick1: :class:`~obspy.core.utcdatetime.UTCDateTime`
:param pick1: Time of pick for `trace1`.
:type trace1: :class:`~obspy.core.trace.Trace`
:param trace1: Waveform data for `pick1`. Add some time at front/back.
The appropriate part of the trace is used automatically.
:type pick2: :class:`~obspy.core.utcdatetime.UTCDateTime`
:param pick2: Time of pick for `trace2`.
:type trace2: :class:`~obspy.core.trace.Trace`
:param trace2: Waveform data for `pick2`. Add some time at front/back.
The appropriate part of the trace is used automatically.
:type t_before: float
:param t_before: Time to start cross correlation window before pick times
in seconds.
:type t_after: float
:param t_after: Time to end cross correlation window after pick times in
seconds.
:type cc_maxlag: float
:param cc_maxlag: Maximum lag time tested during cross correlation in
seconds.
:type filter: str
:param filter: None for no filtering or name of filter type
as passed on to :meth:`~obspy.core.Trace.trace.filter` if filter
should be used. To avoid artifacts in filtering provide
sufficiently long time series for `trace1` and `trace2`.
:type filter_options: dict
:param filter_options: Filter options that get passed on to
:meth:`~obspy.core.Trace.trace.filter` if filtering is used.
:type plot: bool
:param plot: Determines if pick is refined automatically (default, ""),
if an informative matplotlib plot is shown ("plot"), or if an
interactively changeable PyQt Window is opened ("interactive").
:type filename: str
:param filename: If plot option is selected, specifying a filename here
(e.g. 'myplot.pdf' or 'myplot.png') will output the plot to a file
instead of opening a plot window.
:rtype: (float, float)
:returns: Correction time `pick2_corr` for `pick2` pick time as a float and
corresponding correlation coefficient.
"""
# perform some checks on the traces
if trace1.stats.sampling_rate != trace2.stats.sampling_rate:
msg = "Sampling rates do not match: %s != %s" % \
(trace1.stats.sampling_rate, trace2.stats.sampling_rate)
raise Exception(msg)
if trace1.id != trace2.id:
msg = "Trace ids do not match: %s != %s" % (trace1.id, trace2.id)
warnings.warn(msg)
samp_rate = trace1.stats.sampling_rate
# don't modify existing traces with filters
if filter:
trace1 = trace1.copy()
trace2 = trace2.copy()
# check data, apply filter and take correct slice of traces
slices = []
for _i, (t, tr) in enumerate(((pick1, trace1), (pick2, trace2))):
start = t - t_before - (cc_maxlag / 2.0)
end = t + t_after + (cc_maxlag / 2.0)
duration = end - start
# check if necessary time spans are present in data
if tr.stats.starttime > start:
msg = "Trace %s starts too late." % _i
raise Exception(msg)
if tr.stats.endtime < end:
msg = "Trace %s ends too early." % _i
raise Exception(msg)
if filter and start - tr.stats.starttime < duration:
msg = "Artifacts from signal processing possible. Trace " + \
"%s should have more additional data at the start." % _i
warnings.warn(msg)
if filter and tr.stats.endtime - end < duration:
msg = "Artifacts from signal processing possible. Trace " + \
"%s should have more additional data at the end." % _i
warnings.warn(msg)
# apply signal processing and take correct slice of data
if filter:
tr.data = tr.data.astype(np.float64)
tr.detrend(type='demean')
tr.data *= cosTaper(len(tr), 0.1)
tr.filter(type=filter, **filter_options)
slices.append(tr.slice(start, end))
# cross correlate
shift_len = int(cc_maxlag * samp_rate)
_cc_shift, cc_max, cc = xcorr(slices[0].data,
slices[1].data,
shift_len,
full_xcorr=True)
cc_curvature = np.concatenate((np.zeros(1), np.diff(cc, 2), np.zeros(1)))
cc_convex = np.ma.masked_where(np.sign(cc_curvature) >= 0, cc)
cc_concave = np.ma.masked_where(np.sign(cc_curvature) < 0, cc)
# check results of cross correlation
if cc_max < 0:
msg = "Absolute maximum is negative: %.3f. " % cc_max + \
"Using positive maximum: %.3f" % max(cc)
warnings.warn(msg)
cc_max = max(cc)
if cc_max < 0.8:
msg = "Maximum of cross correlation lower than 0.8: %s" % cc_max
warnings.warn(msg)
# make array with time shifts in seconds corresponding to cc function
cc_t = np.linspace(-cc_maxlag, cc_maxlag, shift_len * 2 + 1)
# take the subportion of the cross correlation around the maximum that is
# convex and fit a parabola.
# use vertex as subsample resolution best cc fit.
peak_index = cc.argmax()
first_sample = peak_index
# XXX this could be improved..
while first_sample > 0 and cc_curvature[first_sample - 1] <= 0:
first_sample -= 1
last_sample = peak_index
while last_sample < len(cc) - 1 and cc_curvature[last_sample + 1] <= 0:
last_sample += 1
if first_sample == 0 or last_sample == len(cc) - 1:
msg = "Fitting at maximum lag. Maximum lag time should be increased."
warnings.warn(msg)
# work on subarrays
num_samples = last_sample - first_sample + 1
if num_samples < 3:
msg = "Less than 3 samples selected for fit to cross " + \
"correlation: %s" % num_samples
raise Exception(msg)
if num_samples < 5:
msg = "Less than 5 samples selected for fit to cross " + \
"correlation: %s" % num_samples
warnings.warn(msg)
# quadratic fit for small subwindow
coeffs, residual = scipy.polyfit(cc_t[first_sample:last_sample + 1],
cc[first_sample:last_sample + 1],
deg=2,
full=True)[:2]
# check results of fit
if coeffs[0] >= 0:
msg = "Fitted parabola opens upwards!"
warnings.warn(msg)
if residual > 0.1:
msg = "Residual in quadratic fit to cross correlation maximum " + \
"larger than 0.1: %s" % residual
warnings.warn(msg)
# X coordinate of vertex of parabola gives time shift to correct
# differential pick time. Y coordinate gives maximum correlation
# coefficient.
dt = -coeffs[1] / 2.0 / coeffs[0]
coeff = (4 * coeffs[0] * coeffs[2] - coeffs[1]**2) / (4 * coeffs[0])
# this is the shift to apply on the time axis of `trace2` to align the
# traces. Actually we do not want to shift the trace to align it but we
# want to correct the time of `pick2` so that the traces align without
# shifting. This is the negative of the cross correlation shift.
dt = -dt
pick2_corr = dt
# plot the results if selected
if plot is True:
import matplotlib
if filename:
matplotlib.use('agg')
import matplotlib.pyplot as plt
fig = plt.figure()
ax1 = fig.add_subplot(211)
tmp_t = np.linspace(0, len(slices[0]) / samp_rate, len(slices[0]))
ax1.plot(tmp_t,
slices[0].data / float(slices[0].data.max()),
"k",
label="Trace 1")
ax1.plot(tmp_t,
slices[1].data / float(slices[1].data.max()),
"r",
label="Trace 2")
ax1.plot(tmp_t - dt,
slices[1].data / float(slices[1].data.max()),
"g",
label="Trace 2 (shifted)")
ax1.legend(loc="lower right", prop={'size': "small"})
ax1.set_title("%s" % slices[0].id)
ax1.set_xlabel("time [s]")
ax1.set_ylabel("norm. amplitude")
ax2 = fig.add_subplot(212)
ax2.plot(cc_t,
cc_convex,
ls="",
marker=".",
c="k",
label="xcorr (convex)")
ax2.plot(cc_t,
cc_concave,
ls="",
marker=".",
c="0.7",
label="xcorr (concave)")
ax2.plot(cc_t[first_sample:last_sample + 1],
cc[first_sample:last_sample + 1],
"b.",
label="used for fitting")
tmp_t = np.linspace(cc_t[first_sample], cc_t[last_sample],
num_samples * 10)
ax2.plot(tmp_t, scipy.polyval(coeffs, tmp_t), "b", label="fit")
ax2.axvline(-dt, color="g", label="vertex")
ax2.axhline(coeff, color="g")
ax2.set_xlabel("%.2f at %.3f seconds correction" % (coeff, -dt))
ax2.set_ylabel("correlation coefficient")
ax2.set_ylim(-1, 1)
ax2.legend(loc="lower right", prop={'size': "x-small"})
# plt.legend(loc="lower left")
if filename:
fig.savefig(fname=filename)
else:
plt.show()
return (pick2_corr, coeff)
def mwcs(ccCurrent, ccReference, fmin, fmax, sampRate, tmin, windL, step,
plot=False):
"""...
:type ccCurrent: :class:`numpy.ndarray`
:param ccCurrent: The "Current" timeseries
:type ccReference: :class:`numpy.ndarray`
:param ccReference: The "Reference" timeseries
:type fmin: float
:param fmin: The lower frequency bound to compute the dephasing
:type fmax: float
:param fmax: The higher frequency bound to compute the dephasing
:type sampRate: float
:param sampRate: The sample rate of the input timeseries
:type tmin: float
:param tmin: The leftmost time lag (used to compute the "time lags array")
:type windL: float
:param windL: The moving window length
:type step: float
:param step: The step to jump for the moving window
:type plot: bool
:param plot: If True, plots the MWCS result for each window. Defaults to
False
:rtype: :class:`numpy.ndarray`
:returns: [Taxis,deltaT,deltaErr,deltaMcoh]. Taxis contains the central
times of the windows. The three other columns contain dt, error and
mean coherence for each window.
"""
windL = np.int(windL*sampRate)
step = np.int(step*sampRate)
count = 0
deltaT = []
deltaErr = []
deltaMcoh = []
Taxis = []
padd = 2**(nextpow2(windL)+2)
# Tentative checking if enough point are used to compute the FFT
freqVec = scipy.fftpack.fftfreq(int(padd), 1./sampRate)[:int(padd)/2]
indRange = np.argwhere(np.logical_and(freqVec >= fmin,
freqVec <= fmax))
if len(indRange) < 2:
padd = 2**(nextpow2(windL)+3)
tp = cosTaper(windL, .85)
timeaxis = (np.arange(len(ccCurrent)) / float(sampRate))+tmin
minind = 0
maxind = windL
while maxind <= len(ccCurrent):
ind = minind
cci = ccCurrent[ind:(ind+windL)].copy()
cci = scipy.signal.detrend(cci, type='linear')
cci -= cci.min()
cci /= cci.max()
cci -= np.mean(cci)
cci *= tp
cri = ccReference[ind:(ind+windL)].copy()
cri = scipy.signal.detrend(cri, type='linear')
cri -= cri.min()
cri /= cri.max()
cri -= np.mean(cri)
cri *= tp
Fcur = scipy.fftpack.fft(cci, n=int(padd))[:int(padd)/2]
Fref = scipy.fftpack.fft(cri, n=int(padd))[:int(padd)/2]
Fcur2 = np.real(Fcur)**2 + np.imag(Fcur)**2
Fref2 = np.real(Fref)**2 + np.imag(Fref)**2
smoother = 5
dcur = np.sqrt(smooth(Fcur2, window='hanning', half_win=smoother))
dref = np.sqrt(smooth(Fref2, window='hanning', half_win=smoother))
# Calculate the cross-spectrum
X = Fref*(Fcur.conj())
X = smooth(X, window='hanning', half_win=smoother)
dcs = np.abs(X)
# Find the values the frequency range of interest
freqVec = scipy.fftpack.fftfreq(len(X)*2, 1./sampRate)[:int(padd)/2]
indRange = np.argwhere(np.logical_and(freqVec >= fmin,
freqVec <= fmax))
# Get Coherence and its mean value
coh = getCoherence(dcs, dref, dcur)
mcoh = np.mean(coh[indRange])
# Get Weights
w = 1.0 / (1.0 / (coh[indRange]**2) - 1.0)
w[coh[indRange] >= 0.99] = 1.0 / (1.0 / 0.9801 - 1.0)
w = np.sqrt(w * np.sqrt(dcs[indRange]))
# w /= (np.sum(w)/len(w)) #normalize
w = np.real(w)
# Frequency array:
v = np.real(freqVec[indRange]) * 2 * np.pi
vo = np.real(freqVec) * 2 * np.pi
# Phase:
phi = np.angle(X)
phi[0] = 0.
phi = np.unwrap(phi)
#phio = phi.copy()
phi = phi[indRange]
# Calculate the slope with a weighted least square linear regression
# forced through the origin
# weights for the WLS must be the variance !
res = sm.regression.linear_model.WLS(phi, v, w**2).fit()
# print "forced", np.real(res.params[0])
# print "!forced", np.real(res2.params[0])
m = np.real(res.params[0])
deltaT.append(m)
# print phi.shape, v.shape, w.shape
e = np.sum((phi-m*v)**2) / (np.size(v)-1)
s2x2 = np.sum(v**2 * w**2)
sx2 = np.sum(w * v**2)
e = np.sqrt(e*s2x2 / sx2**2)
# print w.shape
if plot:
plt.figure()
plt.suptitle('%.1fs' % (timeaxis[ind + windL/2]))
plt.subplot(311)
plt.plot(cci)
plt.plot(cri)
ax = plt.subplot(312)
plt.plot(vo/(2*np.pi), phio)
plt.scatter(v/(2*np.pi), phi, c=w, edgecolor='none',
vmin=0.6, vmax=1)
plt.subplot(313, sharex=ax)
plt.plot(v/(2*np.pi), coh[indRange])
plt.axhline(mcoh, c='r')
plt.axhline(1.0, c='k', ls='--')
plt.xlim(-0.1, 1.5)
plt.ylim(0, 1.5)
plt.show()
deltaErr.append(e)
deltaMcoh.append(np.real(mcoh))
Taxis.append(timeaxis[ind + windL/2])
count += 1
minind += step
maxind += step
del Fcur, Fref
del X
del freqVec
del indRange
del w, v, e, s2x2
del res
if maxind > len(ccCurrent)+step:
logging.warning("The last window was too small, but was computed")
return np.array([Taxis, deltaT, deltaErr, deltaMcoh]).T
def mwcs(ccCurrent, ccReference, fmin, fmax, sampRate, tmin, windL, step):
windL = np.int(windL * sampRate)
step = np.int(step * sampRate)
count = 0
deltaT = []
deltaErr = []
deltaMcoh = []
Taxis = []
padd = 2**(nextpow2(windL) + 1)
tp = cosTaper(windL, 0.02)
timeaxis = (np.arange(len(ccCurrent)) / float(sampRate)) + tmin
minind = 0
maxind = windL
while maxind <= len(ccCurrent):
# print minind, maxind, timeaxis[np.mean([minind, maxind])], timeaxis[minind + windL/2]
ind = minind
cci = ccCurrent[ind:(ind + windL)].copy()
cci -= np.mean(cci)
cci *= tp
cri = ccReference[ind:(ind + windL)].copy()
cri -= np.mean(cri)
cri *= tp
Fcur = scipy.fftpack.fft(cci, n=int(padd))[:padd / 2]
Fref = scipy.fftpack.fft(cri, n=int(padd))[:padd / 2]
Fcur2 = np.real(Fcur)**2 + np.imag(Fcur)**2
Fref2 = np.real(Fref)**2 + np.imag(Fref)**2
dcur = np.sqrt(smooth(Fcur2, type='hanning'))
dref = np.sqrt(smooth(Fref2, type='hanning'))
#Calculate the cross-spectrum
X = Fref * (Fcur.conj())
X = smooth(X, type='hanning')
dcs = np.abs(X)
#Find the values the frequency range of interest
freqVec = scipy.fftpack.fftfreq(len(X) * 2, 1. / sampRate)[:padd / 2]
indRange = np.argwhere(np.logical_and(freqVec >= fmin,
freqVec <= fmax))
# Get Coherence and its mean value
coh = getCoherence(dcs, dref, dcur)
mcoh = np.mean(coh[indRange])
#Get Weights
w = 1.0 / (1.0 / (coh[indRange]**2) - 1.0)
w[coh[indRange] >= 0.99] = 1.0 / (1.0 / 0.9801 - 1.0)
w = np.sqrt(w * np.sqrt(dcs[indRange]))
# w /= (np.sum(w)/len(w)) #normalize
w = np.real(w)
#Frequency array:
v = np.real(freqVec[indRange]) * 2 * np.pi
# vo = np.real(freqVec) * 2 * np.pi
#Phase:
phi = np.angle(X)
phi[0] = 0
phi = np.unwrap(phi)
# print phi[0]
# phio = phi
phi = phi[indRange]
#Calculate the slope with a weighted least square linear regression forced through the origin
#weights for the WLS must be the variance !
res = sm.regression.linear_model.WLS(phi, v, w**2).fit()
m = np.real(res.params[0])
deltaT.append(m)
# print phi.shape, v.shape, w.shape
e = np.sum((phi - m * v)**2) / (np.size(v) - 1)
s2x2 = np.sum(v**2 * w**2)
sx2 = np.sum(w * v**2)
e = np.sqrt(e * s2x2 / sx2**2)
# print w.shape
# plt.plot(vo, phio)
# plt.scatter(v,phi,c=w)
# plt.plot(vo,vo*m)
# plt.xlim(-1,10)
# plt.ylim(-5,5)
# plt.show()
deltaErr.append(e)
# print m, e, res.bse[0]
deltaMcoh.append(np.real(mcoh))
Taxis.append(timeaxis[ind + windL / 2])
count = count + 1
minind += step
maxind += step
del Fcur, Fref
del X
del freqVec
del indRange
del w, v, e, s2x2
del res
if maxind > len(ccCurrent) + step:
logging.warning("The last window was too small, but was computed")
return np.array([Taxis, deltaT, deltaErr, deltaMcoh]).T
rms_threshold = filterdb.rms_threshold
# print "Filter Bounds used:", filterid, low, high
# Npts = min30
# Nc = 2* Npts - 1
# Nfft = 2**nextpow2(Nc)
Nfft = min30
if min30 / 2 % 2 != 0:
Nfft = min30 + 2
trames2hWb = np.zeros((2, int(Nfft)), dtype=np.complex)
for i, station in enumerate(pair):
# print "USING rms threshold = %f" % rms_threshold
# logging.debug("rmsmat[i] = %f" % rmsmat[i])
if rmsmat[i] > rms_threshold:
cp = cosTaper(len(trame2h[i]),0.04)
if windsorizing != 0:
indexes = np.where(
np.abs(trame2h[i]) > (windsorizing * rmsmat[i]))[0]
# clipping at windsorizing*rms
trame2h[i][indexes] = (trame2h[i][indexes] / np.abs(
trame2h[i][indexes])) * windsorizing * rmsmat[i]
# logging.debug('whiten')
trames2hWb[i] = whiten(
trame2h[i]*cp, Nfft, dt, low, high, plot=False)
else:
# logging.debug("Station no %d, pas de pretraitement car rms < %f ou NaN"% (i, rms_threshold))
trames2hWb[i] = np.zeros(int(Nfft))
stream = read(file)
for tr in stream:
# get poles, zeros, sensitivity and gain
paz = sp.getPAZ(tr.stats.channel)
# Uncomment the following for:
# Integrate by adding a zero at the position zero
# As for the simulation the poles and zeros are inverted and convolved
# in the frequency domain this is basically mutliplying by 1/jw which
# is an integration in the frequency domain
# See "Of Poles and Zeros", Frank Scherbaum, Springer 2007
#paz['zeros'].append(0j)
# preprocessing
tr.data = tr.data.astype('float64') #convert data to float
tr.data = detrend(tr.data, 'linear') #detrend
tr.data *= cosTaper(tr.stats.npts, 0.10) #costaper 5% at start and end
# correct for instrument, play with water_level
# this will results to unit of XSEEDs tag stage_signal_output_units
# most common for seed is m/s, write xseed by sp.writeXSEED('xs.txt')
tr.data = seisSim(tr.data, tr.stats.sampling_rate, paz, inst_sim=None,
water_level=60.0)
tr.data = tr.data/paz['sensitivity']
# You need to do postprocessing the low freq are most likely artefacts (result from
# dividing the freqresp / to high water_level), use a highpass to get
# rid of the artefacts, e.g. highpass at e.g. 2.0Hz
#tr.data = highpass(tr.data, 2.0, df=tr.stats.sampling_rate, corners=2)
#
# the plotting part
#
def mwcs(ccCurrent,
ccReference,
fmin,
fmax,
sampRate,
tmin,
windL,
step,
plot=False):
"""...
:type ccCurrent: :class:`numpy.ndarray`
:param ccCurrent: The "Current" timeseries
:type ccReference: :class:`numpy.ndarray`
:param ccReference: The "Reference" timeseries
:type fmin: float
:param fmin: The lower frequency bound to compute the dephasing
:type fmax: float
:param fmax: The higher frequency bound to compute the dephasing
:type sampRate: float
:param sampRate: The sample rate of the input timeseries
:type tmin: float
:param tmin: The leftmost time lag (used to compute the "time lags array")
:type windL: float
:param windL: The moving window length
:type step: float
:param step: The step to jump for the moving window
:type plot: bool
:param plot: If True, plots the MWCS result for each window. Defaults to
False
:rtype: :class:`numpy.ndarray`
:returns: [Taxis,deltaT,deltaErr,deltaMcoh]. Taxis contains the central
times of the windows. The three other columns contain dt, error and
mean coherence for each window.
"""
windL = np.int(windL * sampRate)
step = np.int(step * sampRate)
count = 0
deltaT = []
deltaErr = []
deltaMcoh = []
Taxis = []
padd = 2**(nextpow2(windL) + 2)
# Tentative checking if enough point are used to compute the FFT
freqVec = scipy.fftpack.fftfreq(int(padd), 1. / sampRate)[:int(padd) / 2]
indRange = np.argwhere(np.logical_and(freqVec >= fmin, freqVec <= fmax))
if len(indRange) < 2:
padd = 2**(nextpow2(windL) + 3)
tp = cosTaper(windL, .85)
timeaxis = (np.arange(len(ccCurrent)) / float(sampRate)) + tmin
minind = 0
maxind = windL
while maxind <= len(ccCurrent):
ind = minind
cci = ccCurrent[ind:(ind + windL)].copy()
cci = scipy.signal.detrend(cci, type='linear')
cci -= cci.min()
cci /= cci.max()
cci -= np.mean(cci)
cci *= tp
cri = ccReference[ind:(ind + windL)].copy()
cri = scipy.signal.detrend(cri, type='linear')
cri -= cri.min()
cri /= cri.max()
cri -= np.mean(cri)
cri *= tp
Fcur = scipy.fftpack.fft(cci, n=int(padd))[:int(padd) / 2]
Fref = scipy.fftpack.fft(cri, n=int(padd))[:int(padd) / 2]
Fcur2 = np.real(Fcur)**2 + np.imag(Fcur)**2
Fref2 = np.real(Fref)**2 + np.imag(Fref)**2
smoother = 5
dcur = np.sqrt(smooth(Fcur2, window='hanning', half_win=smoother))
dref = np.sqrt(smooth(Fref2, window='hanning', half_win=smoother))
# Calculate the cross-spectrum
X = Fref * (Fcur.conj())
X = smooth(X, window='hanning', half_win=smoother)
dcs = np.abs(X)
# Find the values the frequency range of interest
freqVec = scipy.fftpack.fftfreq(len(X) * 2,
1. / sampRate)[:int(padd) / 2]
indRange = np.argwhere(np.logical_and(freqVec >= fmin,
freqVec <= fmax))
# Get Coherence and its mean value
coh = getCoherence(dcs, dref, dcur)
mcoh = np.mean(coh[indRange])
# Get Weights
w = 1.0 / (1.0 / (coh[indRange]**2) - 1.0)
w[coh[indRange] >= 0.99] = 1.0 / (1.0 / 0.9801 - 1.0)
w = np.sqrt(w * np.sqrt(dcs[indRange]))
# w /= (np.sum(w)/len(w)) #normalize
w = np.real(w)
# Frequency array:
v = np.real(freqVec[indRange]) * 2 * np.pi
vo = np.real(freqVec) * 2 * np.pi
# Phase:
phi = np.angle(X)
phi[0] = 0.
phi = np.unwrap(phi)
#phio = phi.copy()
phi = phi[indRange]
# Calculate the slope with a weighted least square linear regression
# forced through the origin
# weights for the WLS must be the variance !
res = sm.regression.linear_model.WLS(phi, v, w**2).fit()
# print "forced", np.real(res.params[0])
# print "!forced", np.real(res2.params[0])
m = np.real(res.params[0])
deltaT.append(m)
# print phi.shape, v.shape, w.shape
e = np.sum((phi - m * v)**2) / (np.size(v) - 1)
s2x2 = np.sum(v**2 * w**2)
sx2 = np.sum(w * v**2)
e = np.sqrt(e * s2x2 / sx2**2)
# print w.shape
if plot:
plt.figure()
plt.suptitle('%.1fs' % (timeaxis[ind + windL / 2]))
plt.subplot(311)
plt.plot(cci)
plt.plot(cri)
ax = plt.subplot(312)
plt.plot(vo / (2 * np.pi), phio)
plt.scatter(v / (2 * np.pi),
phi,
c=w,
edgecolor='none',
vmin=0.6,
vmax=1)
plt.subplot(313, sharex=ax)
plt.plot(v / (2 * np.pi), coh[indRange])
plt.axhline(mcoh, c='r')
plt.axhline(1.0, c='k', ls='--')
plt.xlim(-0.1, 1.5)
plt.ylim(0, 1.5)
plt.show()
deltaErr.append(e)
deltaMcoh.append(np.real(mcoh))
Taxis.append(timeaxis[ind + windL / 2])
count += 1
minind += step
maxind += step
del Fcur, Fref
del X
del freqVec
del indRange
del w, v, e, s2x2
del res
if maxind > len(ccCurrent) + step:
logging.warning("The last window was too small, but was computed")
return np.array([Taxis, deltaT, deltaErr, deltaMcoh]).T
summary.append("######## %s --- %s ########" % (T1, T2))
summary.append("#" * 79)
summary.append(st.__str__(extended=True))
if exceptions:
summary.append("#" * 33 + " Exceptions " + "#" * 33)
summary += exceptions
summary.append("#" * 79)
trig = []
mutt = []
if st:
# preprocessing, backup original data for plotting at end
st.merge(0)
st.detrend("linear")
for tr in st:
tr.data = tr.data * cosTaper(len(tr), 0.01)
#st.simulate(paz_remove="self", paz_simulate=cornFreq2Paz(1.0), remove_sensitivity=False)
st.sort()
st.filter("bandpass", freqmin=PAR.LOW, freqmax=PAR.HIGH, corners=1, zerophase=True)
st.trim(T1, T2)
st_trigger = st.copy()
st.normalize(global_max=False)
# do the triggering
trig = coincidenceTrigger("recstalta", PAR.ON, PAR.OFF, st_trigger,
thr_coincidence_sum=PAR.MIN_STATIONS,
max_trigger_length=PAR.MAXLEN, trigger_off_extension=PAR.ALLOWANCE,
details=True, sta=PAR.STA, lta=PAR.LTA)
for t in trig:
info = "%s %ss %s %s" % (t['time'].strftime("%Y-%m-%dT%H:%M:%S"), ("%.1f" % t['duration']).rjust(4), ("%i" % t['cft_peak_wmean']).rjust(3), "-".join(t['stations']))
summary.append(info)
for istation, station in enumerate(stations):
for comp in comps:
files = eval("datafiles%s['%s']"%(comp,station))
if len(files) != 0:
logging.debug("%s.%s Reading %i Files" % (station, comp, len(files)))
stream = Stream()
for file in sorted(files):
st = read(file,format="MSEED")
stream += st
del st
stream.merge()
stream = stream.split()
for trace in stream:
data = trace.data
if len(data) > 2:
tp = cosTaper(len(data), 0.01 )
data -= np.mean(data)
data *= tp
trace.data = data
else:
trace.data *= 0
del data
logging.debug("%s.%s Merging Stream" % (station, comp))
stream.merge(fill_value=0) #fills gaps with 0s and gives only one 'Trace'
logging.debug("%s.%s Slicing Stream to %s:%s" % (station, comp,utcdatetime.UTCDateTime(goal_day.replace('-','')),utcdatetime.UTCDateTime(goal_day.replace('-',''))+goal_duration-stream[0].stats.delta))
stream[0].trim(utcdatetime.UTCDateTime(goal_day.replace('-','')),utcdatetime.UTCDateTime(goal_day.replace('-',''))+goal_duration-stream[0].stats.delta, pad=True,fill_value=0.0)
trace = stream[0]
data = trace.data
freq = preprocess_lowpass
summary.append("######## %s --- %s ########" % (T1, T2))
summary.append("#" * 79)
summary.append(st.__str__(extended=True))
if exceptions:
summary.append("#" * 33 + " Exceptions " + "#" * 33)
summary += exceptions
summary.append("#" * 79)
trig = []
mutt = []
if st:
# preprocessing, backup original data for plotting at end
st.merge(0)
st.detrend("linear")
for tr in st:
tr.data = tr.data * cosTaper(len(tr), 0.01)
#st.simulate(paz_remove="self", paz_simulate=cornFreq2Paz(1.0), remove_sensitivity=False)
st.sort()
st.filter("bandpass", freqmin=PAR.LOW, freqmax=PAR.HIGH, corners=1, zerophase=True)
st.trim(T1, T2)
st_trigger = st.copy()
st.normalize(global_max=False)
# do the triggering
trig = coincidenceTrigger("recstalta", PAR.ON, PAR.OFF, st_trigger,
thr_coincidence_sum=PAR.MIN_STATIONS,
max_trigger_length=PAR.MAXLEN, trigger_off_extension=PAR.ALLOWANCE,
details=True, sta=PAR.STA, lta=PAR.LTA)
for t in trig:
info = "%s %ss %s %s" % (t['time'].strftime("%Y-%m-%dT%H:%M:%S"), ("%.1f" % t['duration']).rjust(4), ("%i" % t['cft_peak_wmean']).rjust(3), "-".join(t['stations']))
summary.append(info)
for comp in comps:
files = eval("datafiles%s['%s']" % (comp, station))
if len(files) != 0:
logging.debug("%s.%s Reading %i Files" %
(station, comp, len(files)))
stream = Stream()
for file in sorted(files):
st = read(file, format="MSEED")
stream += st
del st
stream.merge()
stream = stream.split()
for trace in stream:
data = trace.data
if len(data) > 2:
tp = cosTaper(len(data), 0.01)
data -= np.mean(data)
data *= tp
trace.data = data
else:
trace.data *= 0
del data
logging.debug("%s.%s Merging Stream" % (station, comp))
stream.merge(fill_value=0
) #fills gaps with 0s and gives only one 'Trace'
logging.debug(
"%s.%s Slicing Stream to %s:%s" %
(station, comp,
utcdatetime.UTCDateTime(goal_day.replace('-', '')),
utcdatetime.UTCDateTime(goal_day.replace('-', '')) +
goal_duration - stream[0].stats.delta))