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core.py
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# -*- coding: utf-8 -*-
"""
Nordic file format support for ObsPy
:copyright:
The ObsPy Development Team (devs@obspy.org)
:license:
GNU Lesser General Public License, Version 3
(https://www.gnu.org/copyleft/lesser.html)
.. note::
Currently does not read nor write moment tensors or focal mechanism
solutions from/to Nordic files.
.. note::
Pick time-residuals are handled in event.origins[0].arrivals, with
the arrival.pick_id linking the arrival (which contain calculated
information) with the pick.resource_id (where the pick contains only
physical measured information).
"""
from __future__ import (absolute_import, division, print_function,
unicode_literals)
from future.builtins import * # NOQA @UnusedWildImport
import warnings
import datetime
import os
import io
from obspy import UTCDateTime, read
from obspy.geodetics import kilometers2degrees, degrees2kilometers
from obspy.core.event import Event, Origin, Magnitude, Comment, Catalog
from obspy.core.event import EventDescription, CreationInfo
from obspy.core.event import Pick, WaveformStreamID, Arrival, Amplitude
mag_mapping = {"ML": "L", "MLv": "L", "mB": "B", "Ms": "S", "MW": "W",
"MbLg": "G", "Mc": "C"}
onsets = {'I': 'impulsive', 'E': 'emergent'}
class NordicParsingError(Exception):
"""
Internal general error for IO operations in obspy.core.io.nordic.
"""
def __init__(self, value):
self.value = value
def _is_sfile(sfile):
"""
Basic test of whether the file is nordic format or not.
Not exhaustive, but checks some of the basics.
:type sfile: str
:param sfile: Path to sfile
:rtype: bool
"""
if not hasattr(sfile, "readline"):
try:
with open(sfile, 'r') as f:
head_line = _get_headline(f)
except Exception:
return False
else:
head_line = _get_headline(sfile)
if head_line is not None:
try:
sfile_seconds = int(head_line[16:18])
except ValueError:
return False
if sfile_seconds == 60:
sfile_seconds = 0
try:
UTCDateTime(int(head_line[1:5]), int(head_line[6:8]),
int(head_line[8:10]), int(head_line[11:13]),
int(head_line[13:15]), sfile_seconds,
int(head_line[19:20]) * 100000)
return True
except Exception:
return False
else:
return False
def _get_headline(f):
for i, line in enumerate(f):
if i == 0 and len(line.rstrip()) != 80:
return None
if line[79] == '1':
return line
else:
return None
def _int_conv(string):
"""
Convenience tool to convert from string to integer.
If empty string return None rather than an error.
>>> _int_conv('12')
12
>>> _int_conv('')
"""
try:
intstring = int(string)
except Exception:
intstring = None
return intstring
def _float_conv(string):
"""
Convenience tool to convert from string to float.
If empty string return None rather than an error.
>>> _float_conv('12')
12.0
>>> _float_conv('')
>>> _float_conv('12.324')
12.324
"""
try:
floatstring = float(string)
except Exception:
floatstring = None
return floatstring
def _str_conv(number, rounded=False):
"""
Convenience tool to convert a number, either float or int into a string.
If the int or float is None, returns empty string.
>>> print(_str_conv(12.3))
12.3
>>> print(_str_conv(12.34546, rounded=1))
12.3
>>> print(_str_conv(None))
<BLANKLINE>
>>> print(_str_conv(1123040))
11.2e5
"""
if not number:
return str(' ')
if not rounded and isinstance(number, (float, int)):
if number < 100000:
string = str(number)
else:
exponant = int('{0:.2E}'.format(number).split('E+')[-1]) - 1
divisor = 10 ** exponant
string = '{0:.1f}'.format(number / divisor) + 'e' + str(exponant)
elif rounded == 2 and isinstance(number, (float, int)):
if number < 100000:
string = '{0:.2f}'.format(number)
else:
exponant = int('{0:.2E}'.format(number).split('E+')[-1]) - 1
divisor = 10 ** exponant
string = '{0:.2f}'.format(number / divisor) + 'e' + str(exponant)
elif rounded == 1 and isinstance(number, (float, int)):
if number < 100000:
string = '{0:.1f}'.format(number)
else:
exponant = int('{0:.2E}'.format(number).split('E+')[-1]) - 1
divisor = 10 ** exponant
string = '{0:.1f}'.format(number / divisor) + 'e' + str(exponant)
else:
return str(number)
return string
def _evmagtonor(mag_type):
"""
Switch from obspy event magnitude types to seisan syntax.
>>> print(_evmagtonor('mB'))
B
>>> print(_evmagtonor('M'))
W
>>> print(_evmagtonor('bob'))
<BLANKLINE>
"""
if mag_type == 'M':
msg = ('Converting generic magnitude to moment magnitude')
warnings.warn(msg)
return "W"
try:
mag = mag_mapping[mag_type]
except KeyError:
warnings.warn(mag_type + ' is not convertible')
return ''
return mag
def _nortoevmag(mag_type):
"""
Switch from nordic type magnitude notation to obspy event magnitudes.
>>> print(_nortoevmag('b'))
mB
>>> print(_nortoevmag('bob'))
<BLANKLINE>
"""
if mag_type.upper() == "L":
return "ML"
inv_mag_mapping = {item: key for key, item in mag_mapping.items()}
try:
mag = inv_mag_mapping[mag_type.upper()]
except KeyError:
warnings.warn(mag_type + ' is not convertible')
return ''
return mag
def readheader(sfile):
"""
Read header information from a seisan nordic format S-file.
:type sfile: str
:param sfile: Path to the s-file
:returns: :class:`~obspy.core.event.event.Event`
"""
with open(sfile, 'r') as f:
header = _readheader(f=f)
return header
def _readheader(f):
"""
Internal header reader.
:type f: file
:param f: File open in read-mode.
:returns: :class:`~obspy.core.event.event.Event`
"""
f.seek(0)
# Base populate to allow for empty parts of file
new_event = Event()
topline = _get_headline(f=f)
if not topline:
raise NordicParsingError('No header found, or incorrect '
'formatting: corrupt s-file')
try:
sfile_seconds = int(topline[16:18])
if sfile_seconds == 60:
sfile_seconds = 0
add_seconds = 60
else:
add_seconds = 0
new_event.origins.append(Origin())
new_event.origins[0].time = UTCDateTime(int(topline[1:5]),
int(topline[6:8]),
int(topline[8:10]),
int(topline[11:13]),
int(topline[13:15]),
sfile_seconds,
int(topline[19:20]) *
100000)\
+ add_seconds
except Exception:
NordicParsingError("Couldn't read a date from sfile")
# new_event.loc_mod_ind=topline[20]
new_event.event_descriptions.append(EventDescription())
new_event.event_descriptions[0].text = topline[21:23]
# new_event.ev_id=topline[22]
try:
new_event.origins[0].latitude = float(topline[23:30])
new_event.origins[0].longitude = float(topline[31:38])
new_event.origins[0].depth = float(topline[39:43]) * 1000
except ValueError:
# The origin 'requires' a lat & long
new_event.origins[0].latitude = None
new_event.origins[0].longitude = None
new_event.origins[0].depth = None
# new_event.depth_ind = topline[44]
# new_event.loc_ind = topline[45]
new_event.creation_info = CreationInfo(agency_id=topline[45:48].strip())
ksta = Comment(text='Number of stations=' + topline[49:51].strip())
new_event.origins[0].comments.append(ksta)
if _float_conv(topline[51:55]) is not None:
# raises "UserWarning: Setting attribute "Time_Residual_RMS" which is
# not a default attribute"
with warnings.catch_warnings():
warnings.simplefilter('ignore', UserWarning)
new_event.origins[0].time_errors['Time_Residual_RMS'] = \
_float_conv(topline[51:55])
# Read in magnitudes if they are there.
for index in [59, 67, 75]:
if not topline[index].isspace():
new_event.magnitudes.append(Magnitude())
new_event.magnitudes[-1].mag = _float_conv(
topline[index - 3:index])
new_event.magnitudes[-1].magnitude_type = \
_nortoevmag(topline[index])
new_event.magnitudes[-1].creation_info = \
CreationInfo(agency_id=topline[index + 1:index + 4].strip())
new_event.magnitudes[-1].origin_id = new_event.origins[0].\
resource_id
# Set the useful things like preferred magnitude and preferred origin
new_event.preferred_origin_id = new_event.origins[0].resource_id
try:
# Select moment first, then local, then
mag_filter = ['MW', 'Mw', 'ML', 'Ml', 'MB', 'Mb',
'MS', 'Ms', 'MC', 'Mc']
_magnitudes = [(m.magnitude_type, m.resource_id)
for m in new_event.magnitudes]
preferred_magnitude = sorted(_magnitudes,
key=lambda x: mag_filter.index(x[0]))[0]
new_event.preferred_magnitude_id = preferred_magnitude[1]
except (ValueError, IndexError):
# If there is a magnitude not specified in filter
try:
new_event.preferred_magnitude_id = new_event.magnitudes[0].\
resource_id
except IndexError:
pass
return new_event
def read_spectral_info(sfile):
"""
Read spectral info from an sfile.
:type sfile: str
:param sfile: Sfile to read from.
:returns:
list of dictionaries of spectral information, units as in seisan
manual, expect for logs which have been converted to floats.
"""
with open(sfile, 'r') as f:
spec_inf = _read_spectral_info(f=f)
return spec_inf
def _read_spectral_info(f):
"""
Internal spectral reader.
:type f: file
:param f: File open in read mode.
:returns:
list of dictionaries of spectral information, units as in
seisan manual, expect for logs which have been converted to floats.
"""
event = _readheader(f=f)
f.seek(0)
origin_date = UTCDateTime(event.origins[0].time.date)
relevant_lines = []
for line in f:
if line[1:5] == 'SPEC':
relevant_lines.append(line)
spec_inf = {}
if not relevant_lines:
return spec_inf
for line in relevant_lines:
spec_str = line.strip()
if spec_str[5:12] in ['AVERAGE', 'STANDARD_DEVIATION']:
info = {}
station = spec_str[5:12]
channel = ''
info['moment'] = _float_conv(spec_str[16:22])
if info['moment'] is not None:
info['moment'] = 10 ** info['moment']
info['stress_drop'] = _float_conv(spec_str[24:30])
info['spectral_level'] = _float_conv(spec_str[32:38])
if info['spectral_level'] is not None:
info['spectral_level'] = 10 ** info['spectral_level']
info['corner_freq'] = _float_conv(spec_str[40:46])
info['source_radius'] = _float_conv(spec_str[47:54])
info['decay'] = _float_conv(spec_str[56:62])
info['window_length'] = _float_conv(spec_str[64:70])
info['moment_mag'] = _float_conv(spec_str[72:78])
spec_inf[(station, channel)] = info
continue
station = spec_str[4:9].strip()
channel = ''.join(spec_str[9:13].split())
try:
info = spec_inf[(station, channel)]
except KeyError:
info = {}
if spec_str[14] == 'T':
info['starttime'] = origin_date + \
(int(spec_str[15:17]) * 3600) +\
(int(spec_str[17:19]) * 60) + int(spec_str[19:21])
if info['starttime'] < event.origins[0].time:
# Wrong day, case of origin at end of day
info['starttime'] += 86400
info['kappa'] = _float_conv(spec_str[23:30])
info['distance'] = _float_conv(spec_str[32:38])
if spec_str[38:40] == 'VS':
info['velocity'] = _float_conv(spec_str[40:46])
info['velocity_type'] = 'S'
elif spec_str[38:40] == 'VP':
info['velocity'] = _float_conv(spec_str[40:46])
info['velocity_type'] = 'P'
else:
warnings.warn('Only VP and VS spectral information'
' implemented')
info['density'] = _float_conv(spec_str[48:54])
info['Q0'] = _float_conv(spec_str[56:62])
info['QA'] = _float_conv(spec_str[64:70])
elif spec_str[14] == 'M':
info['moment'] = _float_conv(spec_str[16:22])
if info['moment']:
info['moment'] = 10 ** info['moment']
info['stress_drop'] = _float_conv(spec_str[24:30])
info['spectral_level'] = _float_conv(spec_str[32:38])
if info['spectral_level']:
info['spectral_level'] = 10 ** info['spectral_level']
info['corner_freq'] = _float_conv(spec_str[40:46])
info['source_radius'] = _float_conv(spec_str[47:54])
info['decay'] = _float_conv(spec_str[56:62])
info['window_length'] = _float_conv(spec_str[64:70])
info['moment_mag'] = _float_conv(spec_str[72:78])
spec_inf[(station, channel)] = info
return spec_inf
def read_nordic(select_file, return_wavnames=False):
"""
Read a catalog of events from a Nordic formatted select file.
Generates a series of temporary files for each event in the select file.
:type select_file: str
:param select_file: Nordic formatted select.out file to open
:type return_wavnames: bool
:param return_wavnames:
If True, will return the names of the waveforms that the events
are associated with.
:return: catalog of events
:rtype: :class:`~obspy.core.event.event.Event`
"""
catalog = Catalog()
event_str = []
if not hasattr(select_file, "readline"):
try:
f = open(select_file, 'r')
except Exception:
try:
f = select_file.decode()
except Exception:
f = str(select_file)
else:
f = select_file
wav_names = []
for line in f:
if len(line.rstrip()) > 0:
event_str.append(line)
elif len(event_str) > 0:
tmp_sfile = io.StringIO()
for event_line in event_str:
tmp_sfile.write(event_line)
new_event = _readheader(f=tmp_sfile)
if return_wavnames:
wav_names.append(_readwavename(f=tmp_sfile))
catalog += _read_picks(f=tmp_sfile, new_event=new_event)
event_str = []
f.close()
if return_wavnames:
return catalog, wav_names
return catalog
def _read_picks(f, new_event):
"""
Internal pick reader. Use read_nordic instead.
:type f: file
:param f: File open in read mode
:type wav_names: list
:param wav_names: List of waveform files in the sfile
:type new_event: :class:`~obspy.core.event.event.Event`
:param new_event: event to associate picks with.
:returns: :class:`~obspy.core.event.event.Event`
"""
f.seek(0)
evtime = new_event.origins[0].time
pickline = []
# Set a default, ignored later unless overwritten
snr = None
for _lineno, line in enumerate(f):
if line[79] == '7':
header = line
break
for _lineno, line in enumerate(f):
if len(line.rstrip('\n').rstrip('\r')) in [80, 79] and \
line[79] in ' 4\n':
pickline += [line]
for line in pickline:
if line[18:28].strip() == '': # If line is empty miss it
continue
weight = line[14]
if weight == '_':
phase = line[10:17]
weight = 0
polarity = ''
else:
phase = line[10:14].strip()
polarity = line[16]
if weight == ' ':
weight = 0
polarity_maps = {"": "undecidable", "C": "positive", "D": "negative"}
try:
polarity = polarity_maps[polarity]
except KeyError:
polarity = "undecidable"
# It is valid nordic for the origin to be hour 23 and picks to be hour
# 00 or 24: this signifies a pick over a day boundary.
if int(line[18:20]) == 0 and evtime.hour == 23:
day_add = 86400
pick_hour = 0
elif int(line[18:20]) == 24:
day_add = 86400
pick_hour = 0
else:
day_add = 0
pick_hour = int(line[18:20])
try:
time = UTCDateTime(evtime.year, evtime.month, evtime.day,
pick_hour, int(line[20:22]),
float(line[23:28])) + day_add
except ValueError:
time = UTCDateTime(evtime.year, evtime.month, evtime.day,
int(line[18:20]), pick_hour,
float("0." + line[23:38].split('.')[1])) +\
60 + day_add
# Add 60 seconds on to the time, this copes with s-file
# preference to write seconds in 1-60 rather than 0-59 which
# datetime objects accept
if header[57:60] == 'AIN':
ain = _float_conv(line[57:60])
warnings.warn('AIN: %s in header, currently unsupported' % ain)
elif header[57:60] == 'SNR':
snr = _float_conv(line[57:60])
else:
warnings.warn('%s is not currently supported' % header[57:60])
# finalweight = _int_conv(line[68:70])
# Create a new obspy.event.Pick class for this pick
_waveform_id = WaveformStreamID(station_code=line[1:6].strip(),
channel_code=line[6:8].strip(),
network_code='NA')
pick = Pick(waveform_id=_waveform_id, phase_hint=phase,
polarity=polarity, time=time)
try:
pick.onset = onsets[line[9]]
except KeyError:
pass
if line[15] == 'A':
pick.evaluation_mode = 'automatic'
else:
pick.evaluation_mode = 'manual'
# Note these two are not always filled - velocity conversion not yet
# implemented, needs to be converted from km/s to s/deg
# if not velocity == 999.0:
# new_event.picks[pick_index].horizontal_slowness = 1.0 / velocity
if _float_conv(line[46:51]) is not None:
pick.backazimuth = _float_conv(line[46:51])
# Create new obspy.event.Amplitude class which references above Pick
# only if there is an amplitude picked.
if _float_conv(line[33:40]) is not None:
_amplitude = Amplitude(generic_amplitude=_float_conv(line[33:40]),
period=_float_conv(line[41:45]),
pick_id=pick.resource_id,
waveform_id=pick.waveform_id)
if pick.phase_hint == 'IAML':
# Amplitude for local magnitude
_amplitude.type = 'AML'
# Set to be evaluating a point in the trace
_amplitude.category = 'point'
# Default AML unit in seisan is nm (Page 139 of seisan
# documentation, version 10.0)
_amplitude.generic_amplitude /= 1e9
_amplitude.unit = 'm'
_amplitude.magnitude_hint = 'ML'
else:
# Generic amplitude type
_amplitude.type = 'A'
if snr:
_amplitude.snr = snr
new_event.amplitudes.append(_amplitude)
elif _int_conv(line[28:33]) is not None:
# Create an amplitude instance for code duration also
_amplitude = Amplitude(generic_amplitude=_int_conv(line[28:33]),
pick_id=pick.resource_id,
waveform_id=pick.waveform_id)
# Amplitude for coda magnitude
_amplitude.type = 'END'
# Set to be evaluating a point in the trace
_amplitude.category = 'duration'
_amplitude.unit = 's'
_amplitude.magnitude_hint = 'Mc'
if snr is not None:
_amplitude.snr = snr
new_event.amplitudes.append(_amplitude)
# Create new obspy.event.Arrival class referencing above Pick
if _float_conv(line[33:40]) is None:
arrival = Arrival(phase=pick.phase_hint, pick_id=pick.resource_id)
if weight is not None:
arrival.time_weight = weight
if _int_conv(line[60:63]) is not None:
arrival.backazimuth_residual = _int_conv(line[60:63])
if _float_conv(line[63:68]) is not None:
arrival.time_residual = _float_conv(line[63:68])
if _float_conv(line[70:75]) is not None:
arrival.distance = kilometers2degrees(_float_conv(line[70:75]))
if _int_conv(line[76:79]) is not None:
arrival.azimuth = _int_conv(line[76:79])
new_event.origins[0].arrivals.append(arrival)
new_event.picks.append(pick)
return new_event
def readwavename(sfile):
"""
Extract the waveform filename from the s-file.
Returns a list of waveform names found in the s-file as multiples can
be present.
:type sfile: str
:param sfile: Path to the sfile
:returns: List of strings of wave paths
:rtype: list
"""
with open(sfile, 'r') as f:
wavenames = _readwavename(f=f)
return wavenames
def _readwavename(f):
"""
Internal wave-name reader.
:type f: file
:param f: File open in read-mode
:return: list of wave-file names
"""
wavename = []
for line in f:
if len(line) == 81 and line[79] == '6':
wavename.append(line[1:79].strip())
return wavename
def blanksfile(wavefile, evtype, userid, overwrite=False, evtime=None):
"""
Generate an empty s-file with a populated header for a given waveform.
:type wavefile: str
:param wavefile: Wave-file to associate with this S-file, the timing of \
the S-file will be taken from this file if evtime is not set.
:type evtype: str
:param evtype: Event type letter code, e.g. L, R, D
:type userid: str
:param userid: 4-character SEISAN USER ID
:type overwrite: bool
:param overwrite: Overwrite an existing S-file, default=False
:type evtime: :class:`~obspy.core.utcdatetime.UTCDateTime`
:param evtime: If given this will set the timing of the S-file
:returns: str, S-file name
"""
if evtime is None:
try:
st = read(wavefile)
evtime = st[0].stats.starttime
except Exception:
raise NordicParsingError('Wavefile: ' + wavefile +
' is invalid, try again with real data.')
# Check that user ID is the correct length
if len(userid) != 4:
raise NordicParsingError('User ID must be 4 characters long')
# Check that evtype is one of L,R,D
if evtype not in ['L', 'R', 'D']:
raise NordicParsingError('Event type must be either L, R or D')
# Generate s-file name in the format dd-hhmm-ss[L,R,D].Syyyymm
sfile = str(evtime.day).zfill(2) + '-' + str(evtime.hour).zfill(2) +\
str(evtime.minute).zfill(2) + '-' + str(evtime.second).zfill(2) +\
evtype + '.S' + str(evtime.year) + str(evtime.month).zfill(2)
# Check is sfile exists
if os.path.isfile(sfile) and not overwrite:
warnings.warn('Desired sfile: ' + sfile + ' exists, will not ' +
'overwrite')
for i in range(1, 10):
sfile = str(evtime.day).zfill(2) + '-' +\
str(evtime.hour).zfill(2) +\
str(evtime.minute).zfill(2) + '-' +\
str(evtime.second + i).zfill(2) + evtype + '.S' +\
str(evtime.year) + str(evtime.month).zfill(2)
if not os.path.isfile(sfile):
break
else:
msg = ('Tried generated files up to 20s in advance and found ' +
'all exist.')
raise NordicParsingError(msg)
with open(sfile, 'w') as f:
# Write line 1 of s-file
f.write(' ' + str(evtime.year) + ' ' + str(evtime.month).rjust(2) +
str(evtime.day).rjust(2) + ' ' +
str(evtime.hour).rjust(2) +
str(evtime.minute).rjust(2) + ' ' +
str(float(evtime.second)).rjust(4) + ' ' +
evtype + '1'.rjust(58) + '\n')
# Write line 2 of s-file
output_time = datetime.datetime.now()
f.write(' ACTION:ARG ' + str(output_time.year)[2:4] +
'-' + str(output_time.month).zfill(2) + '-' +
str(output_time.day).zfill(2) + ' ' +
str(output_time.hour).zfill(2) + ':' +
str(output_time.minute).zfill(2) + ' OP:' +
userid.ljust(4) + ' STATUS:' + 'ID:'.rjust(18) +
str(evtime.year) + str(evtime.month).zfill(2) +
str(evtime.day).zfill(2) + str(evtime.hour).zfill(2) +
str(evtime.minute).zfill(2) + str(evtime.second).zfill(2) +
'I'.rjust(6) + '\n')
# Write line 3 of s-file
write_wavfile = os.path.basename(wavefile)
f.write(' ' + write_wavfile + '6'.rjust(79 - len(write_wavfile)) +
'\n')
# Write final line of s-file
f.write(" STAT SP IPHASW D HRMM SECON CODA AMPLIT PERI AZIMU" +
" VELO AIN AR TRES W DIS CAZ7\n")
return sfile
def write_select(catalog, filename, userid='OBSP', evtype='L',
wavefiles=None):
"""
Function to write a catalog to a select file in nordic format.
:type catalog: :class:`~obspy.core.event.event.Catalog`
:param catalog: A catalog of obspy events
:type filename: str
:param filename: Path to write to
:type userid: str
:param userid: Up to 4 character user ID
:type evtype: str
:param evtype:
Single character string to describe the event, either L, R or D.
:type wavefiles: list
:param wavefiles:
Waveforms to associate the events with, must be ordered in the same
way as the events in the catalog.
"""
if not wavefiles:
wavefiles = ['DUMMY' for _i in range(len(catalog))]
with open(filename, 'w') as fout:
for event, wavfile in zip(catalog, wavefiles):
select = io.StringIO()
_write_nordic(event=event, filename=None, userid=userid,
evtype=evtype, wavefiles=wavfile,
string_io=select)
select.seek(0)
for line in select:
fout.write(line)
fout.write('\n')
def _write_nordic(event, filename, userid='OBSP', evtype='L', outdir='.',
wavefiles='DUMMY', explosion=False,
overwrite=True, string_io=None):
"""
Write an :class:`~obspy.core.event.Event` to a nordic formatted s-file.
:type event: :class:`~obspy.core.event.event.Event`
:param event: A single obspy event
:type filename: str
:param filename:
Filename to write to, can be None, and filename will be generated from
the origin time in nordic format.
:type userid: str
:param userid: Up to 4 character user ID
:type evtype: str
:param evtype:
Single character string to describe the event, either L, R or D.
:type outdir: str
:param outdir: Path to directory to write to
:type wavefiles: list
:param wavefiles: Waveforms to associate the nordic file with
:type explosion: bool
:param explosion:
Note if the event is an explosion, will be marked by an E.
:type overwrite: bool
:param overwrite: force to overwrite old files, defaults to False
:type string_io: io.StringIO
:param string_io:
If given, will write to the StringIO object in memory rather than to
the filename.
:returns: str: name of nordic file written
.. note::
Seisan can find waveforms either by their relative or absolute path, or
by looking for the file recursively in directories within the WAV
directory in your seisan install. Because all lines need to be less
than 79 characters long (fortran hangover) in the s-files, you will
need to determine whether the full-path is okay or not.
"""
# First we need to work out what to call the s-file and open it
# Check that user ID is the correct length
if len(userid) != 4:
raise NordicParsingError('%s User ID must be 4 characters long'
% userid)
# Check that outdir exists
if not os.path.isdir(outdir):
raise NordicParsingError('Out path does not exist, I will not '
'create this: ' + outdir)
# Check that evtype is one of L,R,D
if evtype not in ['L', 'R', 'D']:
raise NordicParsingError('Event type must be either L, R or D')
if explosion:
evtype += 'E'
# Check that there is one event
if isinstance(event, Catalog) and len(event) == 1:
event = event[0]
elif isinstance(event, Event):
event = event
else:
raise NordicParsingError('Needs a single event')
if not isinstance(wavefiles, list):
wavefiles = [str(wavefiles)]
# Determine name from origin time
try:
evtime = event.origins[0].time
except IndexError:
msg = ('Need at least one origin with at least an origin time')
raise NordicParsingError(msg)
if not evtime:
msg = ('event has an origin, but time is not populated. ' +
'This is required!')
raise NordicParsingError(msg)
# Attempt to cope with possible pre-existing files
if not filename:
range_list = []
for i in range(30): # Look +/- 30 seconds around origin time
range_list.append(i)
range_list.append(-1 * i)
range_list = range_list[1:]
for add_secs in range_list:
sfilename = (evtime + add_secs).datetime.strftime('%d-%H%M-%S') +\
evtype[0] + '.S' + (evtime + add_secs).\
datetime.strftime('%Y%m')
if not os.path.isfile(os.path.join(outdir, sfilename)):
sfile_path = os.path.join(outdir, sfilename)
break
elif overwrite:
sfile_path = os.path.join(outdir, sfilename)
break
else:
raise NordicParsingError(os.path.join(outdir, sfilename) +
' already exists, will not overwrite')
else:
sfile_path = os.path.join(outdir, filename)
sfilename = filename
# Write the header info.
if event.origins[0].latitude is not None:
lat = '{0:.3f}'.format(event.origins[0].latitude)
else:
lat = ''
if event.origins[0].longitude is not None:
lon = '{0:.3f}'.format(event.origins[0].longitude)
else:
lon = ''
if event.origins[0].depth is not None:
depth = '{0:.1f}'.format(event.origins[0].depth / 1000)
else:
depth = ''
if event.creation_info:
try:
agency = event.creation_info.get('agency_id')
# If there is creation_info this may not raise an error annoyingly
if agency is None:
agency = ''
except AttributeError:
agency = ''
else:
agency = ''
if len(agency) > 3:
agency = agency[0:3]
# Cope with differences in event uncertainty naming
if event.origins[0].time_errors:
try:
timerms = '{0:.1f}'.format(event.origins[0].
time_errors.Time_Residual_RMS)
except AttributeError:
timerms = '0.0'
else:
timerms = '0.0'
conv_mags = []
for mag_ind in range(3):
mag_info = {}
try:
mag_info['mag'] = '{0:.1f}'.format(
event.magnitudes[mag_ind].mag) or ''
mag_info['type'] = _evmagtonor(event.magnitudes[mag_ind].
magnitude_type) or ''
if event.magnitudes[0].creation_info:
mag_info['agency'] = event.magnitudes[mag_ind].\
creation_info.agency_id or ''
else:
mag_info['agency'] = ''
except IndexError:
mag_info['mag'] = ''
mag_info['type'] = ''
mag_info['agency'] = ''
conv_mags.append(mag_info)
# Work out how many stations were used
if len(event.picks) > 0:
stations = [pick.waveform_id.station_code for pick in event.picks]
ksta = str(len(set(stations)))
else:
ksta = ''
if not string_io:
sfile = open(sfile_path, 'w')
else:
sfile = string_io
sfile.write(' ' + str(evtime.year) + ' ' +
str(evtime.month).rjust(2) +
str(evtime.day).rjust(2) + ' ' +
str(evtime.hour).rjust(2) +
str(evtime.minute).rjust(2) + ' ' +
str(evtime.second).rjust(2) + '.' +
str(evtime.microsecond).ljust(1)[0:1] + ' ' +
evtype.ljust(2) + lat.rjust(7) + ' ' + lon.rjust(7) +
depth.rjust(5) + agency.rjust(5) + ksta.rjust(3) +
timerms.rjust(4) +
conv_mags[0]['mag'].rjust(4) + conv_mags[0]['type'].rjust(1) +
conv_mags[0]['agency'][0:3].rjust(3) +
conv_mags[1]['mag'].rjust(4) + conv_mags[1]['type'].rjust(1) +
conv_mags[1]['agency'][0:3].rjust(3) +
conv_mags[2]['mag'].rjust(4) + conv_mags[2]['type'].rjust(1) +
conv_mags[2]['agency'][0:3].rjust(3) + '1' + '\n')
# Write line 2 of s-file
sfile.write(' ACTION:ARG ' + str(datetime.datetime.now().year)[2:4] + '-' +
str(datetime.datetime.now().month).zfill(2) + '-' +
str(datetime.datetime.now().day).zfill(2) + ' ' +
str(datetime.datetime.now().hour).zfill(2) + ':' +
str(datetime.datetime.now().minute).zfill(2) + ' OP:' +
userid.ljust(4) + ' STATUS:' + 'ID:'.rjust(18) +
str(evtime.year) +
str(evtime.month).zfill(2) +
str(evtime.day).zfill(2) +
str(evtime.hour).zfill(2) +
str(evtime.minute).zfill(2) +
str(evtime.second).zfill(2) +
'I'.rjust(6) + '\n')
# Write line 3 of s-file
for wavefile in wavefiles:
sfile.write(' ' + os.path.basename(wavefile) +
'6'.rjust(79 - len(wavefile)) + '\n')
# Write final line of s-file
sfile.write(' STAT SP IPHASW D HRMM SECON CODA AMPLIT PERI AZIMU' +
' VELO AIN AR TRES W DIS CAZ7\n')
# Now call the populate sfile function
if len(event.picks) > 0:
newpicks = '\n'.join(nordpick(event))
sfile.write(newpicks + '\n')
sfile.write('\n'.rjust(81))
if not string_io:
sfile.close()
return str(sfilename)
else:
return
def nordpick(event):
"""
Format picks in an :class:`~obspy.core.event.event.Event` to nordic.
:type event: :class:`~obspy.core.event.event.Event`
:param event: A single obspy event.
:returns: List of String
.. note::
Currently finalweight is unsupported, nor is velocity, or
angle of incidence. This is because
:class:`~obspy.core.event.event.Event` stores slowness
in s/deg and takeoff angle, which would require computation
from the values stored in seisan. Multiple weights are also
not supported.