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705 lines
24 KiB
705 lines
24 KiB
from __future__ import print_function
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from builtins import zip
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from builtins import range
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import numpy as num
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import time
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from matplotlib.animation import FuncAnimation
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from pyrocko.gui.snuffling import Param, Snuffling, Choice, Switch
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from scipy.signal import fftconvolve, lfilter, hilbert
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from scipy.interpolate import UnivariateSpline
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from pyrocko import orthodrome as ortho
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from pyrocko import parstack
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from pyrocko import util
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from pyrocko import trace
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from pyrocko import model
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import logging
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logger = logging.getLogger('pyrocko.gui.snufflings.fk_parstack.py')
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d2r = num.pi/180.
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km = 1000.
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def search_max_block(n_maxsearch, data):
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'''
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Find indices of maxima of *data* in groups of *n_maxsearch*
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samples.
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returns an array of indices.
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If length of *data* is not a multiple of *n_maxsearch*, *data* will be
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padded.
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'''
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n = len(data)
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n_dim2 = (int(n/n_maxsearch)+1) * n_maxsearch
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n_missing = n_dim2 - n
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if n % n_maxsearch != 0:
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a = num.pad(data, [0, n_missing], mode='minimum')
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else:
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a = data
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return num.argmax(a.reshape((-1, n_maxsearch)), axis=1) +\
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num.arange(0, (n+n_missing)/n_maxsearch) * n_maxsearch
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def instantaneous_phase(signal):
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analytic_signal = hilbert(signal)
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return num.unwrap(num.angle(analytic_signal))
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def get_instantaneous_frequency(signal, fs):
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inst_phase = instantaneous_phase(signal)
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return (num.diff(inst_phase) / (2.0*num.pi) * fs)
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def get_center_station(stations, select_closest=False):
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''' gravitations center of *stations* list.'''
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n = len(stations)
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slats = num.empty(n)
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slons = num.empty(n)
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for i, s in enumerate(stations):
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slats[i] = s.lat
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slons[i] = s.lon
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center_lat, center_lon = ortho.geographic_midpoint(slats, slons)
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if select_closest:
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center_lats = num.ones(n)*center_lat
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center_lons = num.ones(n)*center_lon
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dists = ortho.distance_accurate50m_numpy(
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center_lats, center_lons, slats, slons)
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return stations[num.argmin(dists)]
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else:
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return model.Station(center_lat, center_lon)
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def get_theoretical_backazimuth(event, stations, center_station):
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return (ortho.azimuth_numpy(
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event.lat, event.lon, center_station.lat, center_station.lon)
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+ 180.) % 360.
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def get_shifts(stations, center_station, bazis, slownesses):
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''' shape = (len(bazi), len(slow))'''
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lats = num.array([s.lat for s in stations])
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lons = num.array([s.lon for s in stations])
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lat0 = num.array([center_station.lat] * len(stations))
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lon0 = num.array([center_station.lon] * len(stations))
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ns, es = ortho.latlon_to_ne_numpy(lat0, lon0, lats, lons)
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station_vector = num.array((ns, es)).T
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bazis = bazis * d2r
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shifts = num.zeros((len(bazis)*len(slownesses), len(stations)))
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ishift = 0
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for ibazi, bazi in enumerate(bazis):
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s_vector = num.array((num.cos(bazi), num.sin(bazi)))
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for islowness, slowness in enumerate(slownesses):
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shifts[ishift] = station_vector.dot(s_vector) * slowness
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ishift += 1
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return shifts
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def to_db(d):
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return 10*num.log10(d/num.max(d))
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def lowpass_array(ydata_array, deltat, order, corner, demean=True, axis=1):
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'''
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Apply butterworth highpass to the trace.
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:param order: order of the filter
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:param corner: corner frequency of the filter
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Mean is removed before filtering.
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'''
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(b, a) = trace._get_cached_filter_coefs(
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order, [corner*2.0*deltat], btype='low')
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data = ydata_array.astype(num.float64)
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if len(a) != order+1 or len(b) != order+1:
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logger.warn(
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'Erroneous filter coefficients returned by '
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'scipy.signal.butter(). You may need to downsample the '
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'signal before filtering.')
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if demean:
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data -= num.mean(data, axis=1)[None].T
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return lfilter(b, a, data)
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def highpass_array(ydata_array, deltat, order, corner, demean=True, axis=1):
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'''
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Apply butterworth highpass to the trace.
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:param order: order of the filter
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:param corner: corner frequency of the filter
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Mean is removed before filtering.
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'''
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(b, a) = trace._get_cached_filter_coefs(
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order, [corner*2.0*deltat], btype='high')
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data = ydata_array.astype(num.float64)
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if len(a) != order+1 or len(b) != order+1:
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logger.warn(
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'Erroneous filter coefficients returned by '
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'scipy.signal.butter(). You may need to downsample the '
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'signal before filtering.')
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if demean:
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data -= num.mean(data, axis=1)[None].T
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return lfilter(b, a, data)
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def value_to_index(value, range_min, range_max, range_delta, clip=True):
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''' map a(n array of) *values* to its' index in a continuous data range
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defined by *range_min*, *range_max* and *range_delta*.
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'''
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indices = num.round((value-range_min)/range_delta)
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if clip:
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indices = num.clip(indices, 0, (range_max-range_min)/range_delta)
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return num.asarray(indices, dtype=num.int)
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class FK(Snuffling):
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'''
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<html>
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<head>
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<style type="text/css">
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body { margin-left:10px };
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</style>
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</head>
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<body>
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<h1 align='center'>FK ANALYSIS</h1>
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<p>
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Performs delay and sum in the time domain.
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<u>Usage</u><br>
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- Load station information at startup <br>
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- Zoom into the data until you see only data you desire to analyse or
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use extended markers to selected time regions for analysis<br>
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- Press the 'Run' button <br>
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</p>
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The slowness is in units s/km.
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<p>
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if <b>Show</n> is activated, three images will be genereated for each
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processing block: A polar plot which shows the maximum coherence found
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along the time axis for all slownesses and back-azimuths. The blue dot
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within that figure indicates the position of the maximum. Based on that
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slowness/back-azimuth the other two coherence maps are generated which
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show the coherence in the slowness and back-azimuth domain for that
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specific maximum of that processing block.<br>
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Picinbono, et. al, 1997, On Instantaneous Amplitude and Phase of Signals,
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552 IEEE TRANSACTIONS ON SIGNAL PROCESSING, 45, 3, March 1997
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</body>
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</html>
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'''
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def setup(self):
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self.set_name('FK (parstack)')
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self.add_parameter(Param(
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'max slowness [s/km]', 'slowness_max', 0.2, 0., 1.))
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self.add_parameter(Param(
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'min slowness [s/km]', 'slowness_min', 0.01, 0., 1.))
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self.add_parameter(Param(
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'delta slowness [s/km]', 'slowness_delta', 0.002, 0., 0.2))
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self.add_parameter(Param(
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'delta backazimut', 'delta_bazi', 2, 1, 20))
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self.add_parameter(Param(
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'Increment [s]', 'tinc', 60., 0.5, 60.,
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high_is_none=True))
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self.add_parameter(Param(
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'Smoothing length [N]', 'ntaper', 0, 0, 30, low_is_none=True))
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self.add_parameter(Param(
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'Maximum search factor', 'search_factor', 1, 0, 3))
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self.add_parameter(Choice(
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'Use channels', 'want_channel', '*',
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['*', '*Z', '*E', '*N', 'SHZ', 'BHZ', 'p0']))
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self.add_parameter(
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Choice('method', 'method', 'stack', ['stack', 'correlate'])
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)
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self.add_parameter(Switch('Show', 'want_all', True))
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self.add_parameter(Switch('Phase weighted stack', 'want_pws', False))
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self.set_live_update(False)
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self.irun = 0
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self.figs2draw = []
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def new_figure(self, title=''):
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'''Return a new Figure instance'''
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fig_frame = self.pylab(name='FK: %s (%i)' %
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(title, self.irun), get='figure_frame')
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self.figs2draw.append(fig_frame.gcf())
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return self.figs2draw[-1]
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def draw_figures(self):
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''' Draw all new figures and clear list.'''
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for fig in self.figs2draw:
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fig.canvas.draw()
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self.figs2draw = []
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def call(self):
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self.cleanup()
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figs = []
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azi_theo = None
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method = {'stack': 0,
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'correlate': 2}[self.method]
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bazis = num.arange(0., 360.+self.delta_bazi, self.delta_bazi)
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slownesses = num.arange(self.slowness_min/km,
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self.slowness_max/km,
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self.slowness_delta/km)
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n_bazis = len(bazis)
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n_slow = len(slownesses)
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viewer = self.get_viewer()
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event = viewer.get_active_event()
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stations = self.get_stations()
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stations_dict = dict(zip([viewer.station_key(s) for s in stations],
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stations))
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traces_pile = self.get_pile()
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deltats = traces_pile.deltats.keys()
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if len(deltats) > 1:
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self.fail('sampling rates differ in dataset')
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else:
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deltat_cf = deltats[0]
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tinc_use = self.get_tinc_use(precision=deltat_cf)
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if self.ntaper:
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taper = num.hanning(int(self.ntaper))
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else:
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taper = None
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frames = None
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t1 = time.time()
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# make sure that only visible stations are used
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use_stations = stations
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center_station = get_center_station(use_stations, select_closest=True)
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print('Center station: ', center_station)
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shift_table = get_shifts(
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stations=use_stations,
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center_station=center_station,
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bazis=bazis,
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slownesses=slownesses)
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shifts = num.round(shift_table / deltat_cf).astype(num.int32)
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# padding from maximum shift of traces:
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npad = num.max(num.abs(shifts))
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tpad = npad * deltat_cf
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# additional padding for cross over fading
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npad_fade = 0
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tpad_fade = npad_fade * deltat_cf
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npad += npad_fade
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tpad += tpad_fade
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frames = None
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tinc_add = tinc_use or 0
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def trace_selector(x):
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return util.match_nslc('*.*.*.%s' % self.want_channel, x.nslc_id)
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for traces in self.chopper_selected_traces(
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tinc=tinc_use, tpad=tpad, fallback=True,
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want_incomplete=False, trace_selector=trace_selector):
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if len(traces) == 0:
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self.fail('No traces matched')
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continue
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# should be correct
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t_min = traces[0].tmin
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t_max = traces[0].tmax
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use_stations = []
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for tr in traces:
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try:
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use_stations.append(stations_dict[viewer.station_key(tr)])
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except KeyError:
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self.fail('no trace %s' % ('.'.join(tr.nslc_id)))
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shift_table = get_shifts(
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stations=use_stations,
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center_station=center_station,
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bazis=bazis,
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slownesses=slownesses)
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shifts = num.round(shift_table / deltat_cf).astype(num.int32)
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wmin = traces[0].tmin
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wmax = wmin + tinc_add
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iwmin = int(round((wmin-wmin) / deltat_cf))
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iwmax = int(round((wmax-wmin) / deltat_cf))
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lengthout = iwmax - iwmin
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arrays = num.zeros((len(traces), lengthout + npad*2))
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for itr, tr in enumerate(traces):
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tr = tr.copy()
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if viewer.highpass:
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tr.highpass(4, viewer.highpass, demean=True)
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else:
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tr.ydata = num.asarray(
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tr.ydata, dtype=num.float) - num.mean(tr.ydata)
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if viewer.lowpass:
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tr.lowpass(4, viewer.lowpass)
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arrays[itr] = tr.get_ydata()
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# if viewer.highpass:
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# arrays = highpass_array(
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# arrays, deltat_cf, 4, viewer.highpass)
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# if viewer.lowpass:
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# arrays = lowpass_array(arrays, deltat_cf, 4, viewer.lowpass)
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_arrays = []
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for itr, tr in enumerate(traces):
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if taper is not None:
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ydata = fftconvolve(arrays[itr], taper, mode='same')
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else:
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ydata = arrays[itr]
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_arrays.append(num.asarray(ydata, dtype=num.float64))
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arrays = _arrays
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offsets = num.array(
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[int(round((tr.tmin-wmin) / deltat_cf)) for tr in traces],
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dtype=num.int32)
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ngridpoints = len(bazis)*len(slownesses)
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weights = num.ones((ngridpoints, len(traces)))
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frames, ioff = parstack.parstack(
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arrays, offsets, shifts, weights, method,
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offsetout=iwmin,
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lengthout=lengthout,
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result=frames,
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impl='openmp')
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# theoretical bazi
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if event is not None:
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azi_theo = get_theoretical_backazimuth(
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event, use_stations, center_station)
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print('theoretical azimuth %s degrees' % (azi_theo))
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print('processing time: %s seconds' % (time.time()-t1))
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if frames is None:
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self.fail('Could not process data!')
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return
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frames_reshaped = frames.reshape((n_bazis, n_slow, lengthout))
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times = num.linspace(t_min-tpad_fade, t_max+tpad_fade, lengthout)
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max_powers = num.max(frames, axis=0)
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# power maxima in blocks
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i_max_blocked = search_max_block(
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n_maxsearch=int(npad*self.search_factor), data=max_powers)
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max_powers += (num.min(max_powers)*-1)
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max_powers /= num.max(max_powers)
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max_powers *= max_powers
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weights = max_powers[i_max_blocked]
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block_max_times = times[i_max_blocked]
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_argmax = num.argmax(frames, axis=0)
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imax_bazi_all, imax_slow_all = num.unravel_index(
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_argmax, dims=(n_bazis, n_slow))
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local_max_bazi = bazis[imax_bazi_all][i_max_blocked]
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local_max_slow = slownesses[imax_slow_all][i_max_blocked]*km
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k_north = num.sin(local_max_bazi * d2r) * local_max_slow
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k_east = num.cos(local_max_bazi * d2r) * local_max_slow
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smooth = 4e7
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spline_north = UnivariateSpline(
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block_max_times, k_north, w=weights,
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s=smooth
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)
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spline_east = UnivariateSpline(
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block_max_times, k_east, w=weights,
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s=smooth,
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)
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k_north_fit = spline_north(times)
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k_east_fit = spline_east(times)
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bazi_fitted = num.arctan2(k_east_fit, k_north_fit) / d2r
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bazi_fitted -= 90.
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bazi_fitted *= -1.
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bazi_fitted[num.where(bazi_fitted<0.)] += 360.
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spline_slow = UnivariateSpline(
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block_max_times,
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local_max_slow,
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w=weights,
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)
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slow_fitted = spline_slow(times)
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i_bazi_fitted = value_to_index(
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bazi_fitted, 0., 360., self.delta_bazi)
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i_slow_fitted = value_to_index(
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slow_fitted, self.slowness_min, self.slowness_max,
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self.slowness_delta)
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i_shift = num.ravel_multi_index(
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num.vstack((i_bazi_fitted, i_slow_fitted)),
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(n_bazis, n_slow),
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)
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stack_trace = num.zeros(lengthout)
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i_base = num.arange(lengthout, dtype=num.int) + npad
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for itr, tr in enumerate(traces):
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isorting = num.clip(
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i_base-shifts[i_shift, itr], npad, lengthout+npad)
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stack_trace += tr.ydata[isorting]
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beam_tr = trace.Trace(
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tmin=t_min+tpad, ydata=stack_trace, deltat=deltat_cf)
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self.add_trace(beam_tr)
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if self.want_all:
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# ---------------------------------------------------------
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# maxima search
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# ---------------------------------------------------------
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fig1 = self.new_figure('Max Power')
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nsubplots = 1
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ax = fig1.add_subplot(nsubplots, 1, 1)
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ax.plot(num.max(frames, axis=0))
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# --------------------------------------------------------------
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# coherence maps
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# --------------------------------------------------------------
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max_time = num.amax(frames, axis=0)
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imax_time = num.argmax(max_time)
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best_frame = num.amax(frames, axis=1)
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imax_bazi_slow = num.argmax(best_frame)
|
|
imax_bazi, imax_slow = num.unravel_index(
|
|
num.argmax(best_frame),
|
|
dims=(n_bazis, n_slow))
|
|
|
|
fig2 = self.new_figure('Slowness')
|
|
data = frames_reshaped[imax_bazi, :, :]
|
|
data_max = num.amax(frames_reshaped, axis=0)
|
|
|
|
ax = fig2.add_subplot(211)
|
|
ax.set_title('Global maximum slize')
|
|
ax.set_ylabel('slowness [s/km]')
|
|
ax.plot(times[imax_time], slownesses[imax_slow]*km, 'b.')
|
|
ax.pcolormesh(times, slownesses*km, data)
|
|
|
|
ax = fig2.add_subplot(212, sharex=ax, sharey=ax)
|
|
ax.set_ylabel('slowness [s/km]')
|
|
ax.pcolormesh(times, slownesses*km, data_max)
|
|
ax.set_title('Maximum')
|
|
|
|
# highlight block maxima
|
|
ax.plot(block_max_times, local_max_slow, 'wo')
|
|
|
|
ax.plot(times, num.clip(
|
|
slow_fitted, self.slowness_min, self.slowness_max)
|
|
)
|
|
|
|
fig3 = self.new_figure('Back-Azimuth')
|
|
data = frames_reshaped[:, imax_slow, :]
|
|
data_max = num.amax(frames_reshaped, axis=1)
|
|
|
|
ax = fig3.add_subplot(211, sharex=ax)
|
|
ax.set_title('Global maximum slize')
|
|
ax.set_ylabel('back-azimuth')
|
|
ax.pcolormesh(times, bazis, data)
|
|
ax.plot(times[imax_time], bazis[imax_bazi], 'b.')
|
|
|
|
ax = fig3.add_subplot(212, sharex=ax, sharey=ax)
|
|
ax.set_ylabel('back-azimuth')
|
|
ax.set_title('Maximum')
|
|
ax.pcolormesh(times, bazis, data_max)
|
|
|
|
# highlight block maxima
|
|
ax.plot(block_max_times, local_max_bazi, 'wo')
|
|
ax.plot(times, num.clip(bazi_fitted, 0, 360.))
|
|
|
|
# xfmt = md.DateFormatter('%Y-%m-%d %H:%M:%S')
|
|
# ax.xaxis.set_major_formatter(xfmt)
|
|
# fig.autofmt_xdate()
|
|
# fig.subplots_adjust(hspace=0)
|
|
|
|
semblance = best_frame.reshape((n_bazis, n_slow))
|
|
|
|
fig4 = self.new_figure('Max')
|
|
theta, r = num.meshgrid(bazis, slownesses)
|
|
theta *= (num.pi/180.)
|
|
|
|
ax = fig4.add_subplot(111, projection='polar')
|
|
m = ax.pcolormesh(theta.T, r.T*km, to_db(semblance))
|
|
|
|
ax.plot(bazis[imax_bazi]*d2r, slownesses[imax_slow]*km, 'o')
|
|
|
|
bazi_max = bazis[imax_bazi]*d2r
|
|
slow_max = slownesses[imax_slow]*km
|
|
ax.plot(bazi_max, slow_max, 'b.')
|
|
ax.text(0.5, 0.01, 'Maximum at %s degrees, %s s/km' %
|
|
(num.round(bazi_max, 1), slow_max),
|
|
transform=fig4.transFigure,
|
|
horizontalalignment='center',
|
|
verticalalignment='bottom')
|
|
|
|
if azi_theo:
|
|
ax.arrow(azi_theo/180.*num.pi, num.min(slownesses), 0,
|
|
num.max(slownesses), alpha=0.5, width=0.015,
|
|
edgecolor='black', facecolor='green', lw=2,
|
|
zorder=5)
|
|
|
|
self.adjust_polar_axis(ax)
|
|
fig4.colorbar(m)
|
|
|
|
# ---------------------------------------------------------
|
|
# CF and beam forming
|
|
# ---------------------------------------------------------
|
|
fig5 = self.new_figure('Beam')
|
|
nsubplots = 4
|
|
nsubplots += self.want_pws
|
|
|
|
ax_raw = fig5.add_subplot(nsubplots, 1, 1)
|
|
ax_shifted = fig5.add_subplot(nsubplots, 1, 2)
|
|
ax_beam = fig5.add_subplot(nsubplots, 1, 3)
|
|
ax_beam_new = fig5.add_subplot(nsubplots, 1, 4)
|
|
|
|
axkwargs = dict(alpha=0.3, linewidth=0.3, color='grey')
|
|
|
|
ybeam = num.zeros(lengthout)
|
|
ybeam_weighted = num.zeros(lengthout)
|
|
for i, (shift, array) in enumerate(zip(shifts.T, arrays)):
|
|
ax_raw.plot(times, array[npad: -npad], **axkwargs)
|
|
ishift = shift[imax_bazi_slow]
|
|
ax_shifted.plot(
|
|
times, array[npad-ishift: -npad-ishift], **axkwargs)
|
|
|
|
ydata = traces[i].get_ydata()[npad-ishift: -npad-ishift]
|
|
ybeam += ydata
|
|
|
|
# calculate phase weighting
|
|
if self.want_pws:
|
|
ph_inst = instantaneous_phase(ydata)
|
|
ybeam_weighted += num.abs(num.exp(ph_inst))**4
|
|
|
|
ax_beam_new.plot(stack_trace)
|
|
ax_beam_new.set_title('continuous mode')
|
|
# ax_beam.plot(times, ybeam, color='black')
|
|
ax_beam.plot(ybeam, color='black')
|
|
ax_raw.set_title('Characteristic Function')
|
|
ax_shifted.set_title('Shifted CF')
|
|
ax_beam.set_title('Linear Stack')
|
|
|
|
if self.want_pws:
|
|
ax_playground = fig5.add_subplot(nsubplots, 1, 5)
|
|
ax_playground.plot(ybeam*ybeam_weighted/len(arrays))
|
|
ax_playground.set_title('Phase Weighted Stack')
|
|
|
|
# -----------------------------------------------------------
|
|
# polar movie:
|
|
# -----------------------------------------------------------
|
|
fig6 = self.new_figure('Beam')
|
|
self.polar_movie(
|
|
fig=fig6,
|
|
frames=frames,
|
|
times=times,
|
|
theta=theta.T,
|
|
r=r.T*km,
|
|
nth_frame=2,
|
|
n_bazis=n_bazis,
|
|
n_slow=n_slow,
|
|
)
|
|
|
|
self.draw_figures()
|
|
|
|
self.irun += 1
|
|
|
|
def polar_movie(self, fig, frames, times, theta, r, nth_frame,
|
|
n_bazis, n_slow):
|
|
frame_artists = []
|
|
# progress_artists = []
|
|
ax = fig.add_subplot(111, projection='polar')
|
|
iframe_min = 0
|
|
iframe_max = len(times)-1
|
|
vmin = num.min(frames)
|
|
vmax = num.max(frames)
|
|
self.adjust_polar_axis(ax)
|
|
|
|
def update(iframe):
|
|
# if iframe is not None:
|
|
if False:
|
|
frame = frames[:, iframe]
|
|
'''
|
|
if not progress_artists:
|
|
progress_artists[:] = [axes2.axvline(
|
|
tmin_frames - t0 + deltat_cf * iframe,
|
|
color=scolor('scarletred3'),
|
|
alpha=0.5,
|
|
lw=2.)]
|
|
|
|
else:
|
|
progress_artists[0].set_xdata(
|
|
tmin_frames - t0 + deltat_cf * iframe)
|
|
'''
|
|
else:
|
|
frame = frames[:, iframe].reshape((n_bazis, n_slow))
|
|
|
|
frame_artists[:] = [ax.pcolormesh(theta, r, frame, vmin=vmin,
|
|
vmax=vmax)]
|
|
|
|
# return frame_artists + progress_artists + static_artists
|
|
return frame_artists
|
|
|
|
axf = FuncAnimation( # noqa
|
|
fig, update,
|
|
frames=list(
|
|
range(iframe_min, iframe_max+1))[::nth_frame] + [None],
|
|
interval=20.,
|
|
repeat=False,
|
|
blit=True)
|
|
|
|
fig.canvas.draw()
|
|
|
|
def adjust_polar_axis(self, ax):
|
|
ax.set_theta_zero_location('N')
|
|
ax.set_theta_direction(-1)
|
|
ax.set_xticks([0, num.pi/2., num.pi, 3*num.pi/2])
|
|
ax.set_xticklabels(['N', 'E', 'S', 'W'])
|
|
|
|
def get_tinc_use(self, precision=1.):
|
|
'''
|
|
Set increment time for data processing.
|
|
'''
|
|
if self.tinc is not None:
|
|
tinc = self.tinc
|
|
else:
|
|
tmin, tmax = self.get_selected_time_range(fallback=True)
|
|
if tmin == tmax:
|
|
# selected event marker
|
|
tmin, tmax = self.get_viewer().get_time_range()
|
|
tinc = tmax-tmin
|
|
return num.floor(tinc/precision) * precision
|
|
|
|
|
|
def __snufflings__():
|
|
return [FK()]
|
|
|