def save(traces, filename_template, additional={}, overwrite=True):
from pyrocko import mseed_ext
fn_tr = {}
for tr in traces:
for code, maxlen, val in zip(
['network', 'station', 'location', 'channel'], [2, 5, 2, 3],
tr.nslc_id):
if len(val) > maxlen:
raise CodeTooLong(
'%s code too long to be stored in MSeed file: %s' %
(code, val))
fn = tr.fill_template(filename_template, **additional)
if not overwrite and os.path.exists(fn):
raise FileSaveError('file exists: %s' % fn)
if fn not in fn_tr:
fn_tr[fn] = []
fn_tr[fn].append(tr)
for fn, traces_thisfile in fn_tr.items():
trtups = []
traces_thisfile.sort(lambda a, b: cmp(a.full_id, b.full_id))
for tr in traces_thisfile:
trtups.append(as_tuple(tr))
ensuredirs(fn)
try:
mseed_ext.store_traces(trtups, fn)
except mseed_ext.MSeedError, e:
raise FileSaveError(
str(e) + ' (while storing traces to file \'%s\')' % fn)
def save(traces, filename_template, additional={}):
from pyrocko import mseed_ext
fn_tr = {}
for tr in traces:
for code, maxlen, val in zip(
['network', 'station', 'location', 'channel'],
[2, 5, 2, 3],
tr.nslc_id):
if len(val) > maxlen:
raise CodeTooLong(
'%s code too long to be stored in MSeed file: %s' %
(code, val))
fn = tr.fill_template(filename_template, **additional)
if fn not in fn_tr:
fn_tr[fn] = []
fn_tr[fn].append(tr)
for fn, traces_thisfile in fn_tr.items():
trtups = []
traces_thisfile.sort(lambda a,b: cmp(a.full_id, b.full_id))
for tr in traces_thisfile:
trtups.append(as_tuple(tr))
ensuredirs(fn)
try:
mseed_ext.store_traces(trtups, fn)
except mseed_ext.MSeedError, e:
raise FileSaveError( str(e) + ' (while storing traces to file \'%s\')' % fn)
def available_tilenames(self):
if self._available_tilenames is None:
fpath = op.join(self.data_dir, 'available.list')
if not op.exists(fpath) or os.stat(fpath).st_size == 0:
util.ensuredirs(fpath)
# remote structure changed, we would have to clawl through
# many pages. Now keeping tile index here:
self.download_file(
'https://mirror.pyrocko.org/e4ftl01.cr.usgs.gov/'
'MEASURES/SRTMGL3.003/2000.02.11/available.list', fpath)
# url = self.raw_data_url + '/'
# f = urlopen(url)
# data = f.read().decode()
# available = re.findall(
# r'([NS]\d\d[EW]\d\d\d)\.SRTMGL3\.hgt', data)
#
# f.close()
#
# with open(fpath, 'w') as f:
# f.writelines('%s\n' % s for s in available)
with open(fpath, 'r') as f:
available = [
s.strip() for s in f.readlines()
if re.match(r'^[NS]\d\d[EW]\d\d\d$', s.strip())
]
self._available_tilenames = set(available)
return self._available_tilenames
def available_tilenames(self):
if self._available_tilenames is None:
fpath = op.join(self.data_dir, 'available.list')
if not op.exists(fpath) or os.stat(fpath).st_size == 0:
util.ensuredirs(fpath)
# remote structure changed, we would have to clawl through
# many pages. Now keeping tile index here:
self.download_file(
'http://data.pyrocko.org/scratch/available.list', fpath)
# url = self.raw_data_url + '/'
# f = urlopen(url)
# data = f.read().decode()
# available = re.findall(
# r'([NS]\d\d[EW]\d\d\d)\.SRTMGL3\.hgt', data)
#
# f.close()
#
# with open(fpath, 'w') as f:
# f.writelines('%s\n' % s for s in available)
with open(fpath, 'r') as f:
available = [
s.strip() for s in f.readlines()
if re.match(r'^[NS]\d\d[EW]\d\d\d$', s.strip())]
self._available_tilenames = set(available)
return self._available_tilenames
def save(traces, filename_template, additional={}, max_open_files=10):
fns = set()
open_files = {}
def close_files():
while open_files:
open_files.popitem()[1].close()
for tr in traces:
fn = tr.fill_template(filename_template, **additional)
if fn not in open_files:
if len(open_files) >= max_open_files:
close_files()
if fn not in fns:
ensuredirs(fn)
open_files[fn] = open(fn, 'wa'[fn in fns])
fns.add(fn)
tf = TracesFileIO(open_files[fn])
tf.save([tr])
tf.close()
close_files()
return list(fns)
def save(traces, filename_template, additional={}, max_open_files=10,
overwrite=True):
fns = set()
open_files = {}
def close_files():
while open_files:
open_files.popitem()[1].close()
for tr in traces:
fn = tr.fill_template(filename_template, **additional)
if fn not in open_files:
if len(open_files) >= max_open_files:
close_files()
if fn not in fns:
if not overwrite and os.path.exists(fn):
raise FileSaveError('file exists: %s' % fn)
ensuredirs(fn)
open_files[fn] = open(fn, 'wa'[fn in fns])
fns.add(fn)
tf = TracesFileIO(open_files[fn])
tf.save([tr])
tf.close()
close_files()
return list(fns)
def create_grond_files(self):
logger.info('Creating Grond configuration for %s' %
' and '.join([obs.name for obs in self.observations]))
config_path = op.join(self.project_dir, self.get_grond_config_path())
util.ensuredirs(config_path)
grond.write_config(self.get_grond_config(), config_path)
def create_group_automap(self, config, iter_item_figure, **kwargs):
group = PlotGroup(
formats=guts.clone(config.formats),
size_cm=config.size_cm,
name=config.name,
variant=config.variant,
**kwargs)
path_group = self.path_group(group=group)
if os.path.exists(path_group):
self.remove_group_files(path_group)
group_ref = (group.name, group.variant)
if group_ref in self._collection.group_refs:
self._collection.group_refs.remove(group_ref)
self.dump_collection()
for item, automap in iter_item_figure:
group.items.append(item)
for format in group.formats:
path = self.path_image(group, item, format)
util.ensuredirs(path)
format.render_automap(
automap,
path=path,
resolution=format.get_dpi(group.size_cm))
logger.info('Figure saved: %s' % path)
util.ensuredirs(path_group)
group.dump(filename=path_group)
self._collection.group_refs.append(group_ref)
self.dump_collection()
def save_rapid_station_table(stations_path, stations):
'''Save station table in format for rapidinv'''
util.ensuredirs(stations_path)
f = open(stations_path, 'w')
for istation, station in enumerate(stations):
f.write('%4i %-10s %15.8e %15.8e\n' %
(istation, station.station, station.lat, station.lon))
f.close()
def command_tttextract(args):
def setup(parser):
parser.add_option(
'--output', dest='output_fn', metavar='TEMPLATE',
help='output to text files instead of stdout '
'(example TEMPLATE: "extracted/%(args)s.txt")')
parser, options, args = cl_parse('tttextract', args, setup=setup)
try:
sdef = args.pop()
except Exception:
parser.error('cannot get <selection> argument')
try:
sphase = args.pop()
except Exception:
parser.error('cannot get <phase> argument')
try:
phases = [gf.meta.Timing(x.strip()) for x in sphase.split(',')]
except gf.meta.InvalidTimingSpecification:
parser.error('invalid phase specification: "%s"' % sphase)
try:
gdef = gf.meta.parse_grid_spec(sdef)
except gf.meta.GridSpecError as e:
die(e)
store_dir = get_store_dir(args)
try:
store = gf.Store(store_dir)
for args in store.config.iter_extraction(gdef, level=-1):
s = ['%e' % x for x in args]
for phase in phases:
t = store.t(phase, args)
if t is not None:
s.append('%e' % t)
else:
s.append('nan')
if options.output_fn:
d = dict(
args='_'.join('%e' % x for x in args),
extension='txt')
fn = options.output_fn % d
util.ensuredirs(fn)
with open(fn, 'a') as f:
f.write(' '.join(s))
f.write('\n')
else:
print(' '.join(s))
except (gf.meta.GridSpecError, gf.StoreError, gf.meta.OutOfBounds) as e:
die(e)
def save(traces,
filename_template,
additional={},
max_open_files=10,
overwrite=True):
from pyrocko import info
from . import ims
fns = set()
open_files = {}
def close_files():
while open_files:
open_files.popitem()[1].close()
for tr in traces:
fn = tr.fill_template(filename_template, **additional)
if fn not in open_files:
if len(open_files) >= max_open_files:
close_files()
if fn not in fns:
if not overwrite and os.path.exists(fn):
raise FileSaveError('file exists: %s' % fn)
ensuredirs(fn)
open_files[fn] = open(fn, ['wb', 'ab'][fn in fns])
writer = ims.Writer(open_files[fn])
writer.write(
ims.MessageHeader(version='GSE2.1',
type='DATA',
msg_id=ims.MsgID(msg_id_string=randomid(),
msg_id_source='Pyrocko_%s' %
info.version)))
writer.write(
ims.WaveformSection(
datatype=ims.DataType(type='WAVEFORM', format='GSE2.1')))
fns.add(fn)
sec = ims.WID2Section.from_pyrocko_trace(tr, None, None, None, None)
writer = ims.Writer(open_files[fn])
writer.write(sec)
for fn in fns:
if fn not in open_files:
open_files[fn] = open(fn, 'ab')
writer = ims.Writer(open_files[fn])
writer.write(ims.Stop())
open_files.pop(fn).close()
return list(fns)
def command_tttextract(args):
def setup(parser):
parser.add_option('--output',
dest='output_fn',
metavar='TEMPLATE',
help='output to text files instead of stdout '
'(example TEMPLATE: "extracted/%(args)s.txt")')
parser, options, args = cl_parse('tttextract', args, setup=setup)
try:
sdef = args.pop()
except Exception:
parser.error('cannot get <selection> argument')
try:
sphase = args.pop()
except Exception:
parser.error('cannot get <phase> argument')
try:
phases = [gf.meta.Timing(x.strip()) for x in sphase.split(',')]
except gf.meta.InvalidTimingSpecification:
parser.error('invalid phase specification: "%s"' % sphase)
try:
gdef = gf.meta.parse_grid_spec(sdef)
except gf.meta.GridSpecError as e:
die(e)
store_dir = get_store_dir(args)
try:
store = gf.Store(store_dir)
for args in store.config.iter_extraction(gdef, level=-1):
s = ['%e' % x for x in args]
for phase in phases:
t = store.t(phase, args)
if t is not None:
s.append('%e' % t)
else:
s.append('nan')
if options.output_fn:
d = dict(args='_'.join('%e' % x for x in args),
extension='txt')
fn = options.output_fn % d
util.ensuredirs(fn)
with open(fn, 'w') as f:
f.write(' '.join(s))
f.write('\n')
else:
print(' '.join(s))
except (gf.meta.GridSpecError, gf.StoreError, gf.meta.OutOfBounds) as e:
die(e)
def get_test_data(path):
fn = test_data_path(path)
if not op.exists(fn):
util.ensuredirs(fn)
if path.endswith('/'):
util.download_dir(op.join(url, path), fn)
else:
util.download_file(op.join(url, path), fn)
return fn
def combi_get_responses(stations, time, fn_template):
from pyrocko.fdsn import ws
from pyrocko.fdsn import station as fdsnstation
def fn(net, sta, loc, cha):
return fn_template % dict(
network=net, station=sta, location=loc, channel=cha)
def iter_nslcs(site=None, ignore=None):
for station in stations:
if site is not None and site not in station.datacenters:
continue
for channel in station.get_channels():
nslc = station.nsl() + (channel.name, )
if ignore is None or nslc not in ignore:
yield nslc
responses = {}
for nslc in iter_nslcs():
if os.path.exists(fn(*nslc)):
responses[nslc] = pload(fn(*nslc))
for site in ['geofon', 'iris']:
selection = []
for nslc in iter_nslcs(site=site, ignore=responses):
selection.append(nslc + (time, time + 1.0))
if selection:
logger.info('downloading response information (%s)' % site)
sxs = ws.station(site=site, level='response', selection=selection)
for nslc_tspan in selection:
nslc = nslc_tspan[:4]
timespan = nslc_tspan[4:]
try:
response = sxs.get_pyrocko_response(nslc,
timespan=timespan,
fake_input_units='M')
util.ensuredirs(fn(*nslc))
pdump(response, fn(*nslc))
responses[nslc] = response
except (fdsnstation.NoResponseInformation,
fdsnstation.MultipleResponseInformation):
pass
for station in stations:
for channel in station.get_channels():
nslc = station.nsl() + (channel.name, )
if nslc in responses:
channel.response = responses[nslc]
else:
channel.response = None
def save(traces, filename_template, additional={}, max_open_files=10,
overwrite=True):
from pyrocko import ims, info
fns = set()
open_files = {}
def close_files():
while open_files:
open_files.popitem()[1].close()
for tr in traces:
fn = tr.fill_template(filename_template, **additional)
if fn not in open_files:
if len(open_files) >= max_open_files:
close_files()
if fn not in fns:
if not overwrite and os.path.exists(fn):
raise FileSaveError('file exists: %s' % fn)
ensuredirs(fn)
open_files[fn] = open(fn, 'wa'[fn in fns])
writer = ims.Writer(open_files[fn])
writer.write(
ims.MessageHeader(
version='GSE2.1',
type='DATA',
msg_id=ims.MsgID(
msg_id_string=randomid(),
msg_id_source='Pyrocko_%s' % info.version)))
writer.write(ims.WaveformSection(
datatype=ims.DataType(
type='WAVEFORM',
format='GSE2.1')))
fns.add(fn)
sec = ims.WID2Section.from_pyrocko_trace(tr, None, None, None, None)
writer = ims.Writer(open_files[fn])
writer.write(sec)
for fn in fns:
if fn not in open_files:
open_files[fn] = open(fn, 'a')
writer = ims.Writer(open_files[fn])
writer.write(ims.Stop())
open_files.pop(fn).close()
return list(fns)
def make_tile(self, itx, ity, fpath):
nh = self.ndeci // 2
xmin = self.xmin + itx*self.stx - self.base.dx * nh
xmax = self.xmin + (itx+1)*self.stx + self.base.dx * nh
ymin = self.ymin + ity*self.sty - self.base.dy * nh
ymax = self.ymin + (ity+1)*self.sty + self.base.dy * nh
t = self.base.get_with_repeat((xmin, xmax, ymin, ymax))
if t is not None:
t.decimate(self.ndeci)
util.ensuredirs(fpath)
with open(fpath, 'w') as f:
if t is not None:
t.data.tofile(f)
def make_tile(self, itx, ity, fpath):
nh = self.ndeci // 2
xmin = self.xmin + itx * self.stx - self.base.dx * nh
xmax = self.xmin + (itx + 1) * self.stx + self.base.dx * nh
ymin = self.ymin + ity * self.sty - self.base.dy * nh
ymax = self.ymin + (ity + 1) * self.sty + self.base.dy * nh
t = self.base.get_with_repeat((xmin, xmax, ymin, ymax))
if t is not None:
t.decimate(self.ndeci)
util.ensuredirs(fpath)
with open(fpath, 'w') as f:
if t is not None:
t.data.tofile(f)
def create_group_mpl(self, config, iter_item_figure, **kwargs):
from matplotlib import pyplot as plt
group = PlotGroup(
formats=guts.clone(config.formats),
size_cm=config.size_cm,
name=config.name,
variant=config.variant,
**kwargs)
path_group = self.path_group(group=group)
if os.path.exists(path_group):
self.remove_group_files(path_group)
group_ref = (group.name, group.variant)
if group_ref in self._collection.group_refs:
self._collection.group_refs.remove(group_ref)
self.dump_collection()
figs_to_close = []
for item, fig in iter_item_figure:
group.items.append(item)
for format in group.formats:
path = self.path_image(group, item, format)
util.ensuredirs(path)
format.render_mpl(
fig,
path=path,
dpi=format.get_dpi(group.size_cm))
logger.info('Figure saved: %s' % path)
if not self._show:
plt.close(fig)
else:
figs_to_close.append(fig)
util.ensuredirs(path_group)
group.validate()
group.dump(filename=path_group)
self._collection.group_refs.append(group_ref)
self.dump_collection()
if self._show:
plt.show()
for fig in figs_to_close:
plt.close(fig)
def save(traces,
filename_template,
additional={},
overwrite=True,
steim=1,
record_length=4096):
from pyrocko import mseed_ext
assert record_length in VALID_RECORD_LENGTHS
fn_tr = {}
for tr in traces:
for code, maxlen, val in zip(
['network', 'station', 'location', 'channel'], [2, 5, 2, 3],
tr.nslc_id):
if len(val) > maxlen:
raise CodeTooLong(
'%s code too long to be stored in MSeed file: %s' %
(code, val))
fn = tr.fill_template(filename_template, **additional)
if not overwrite and os.path.exists(fn):
raise FileSaveError('File exists: %s' % fn)
if fn not in fn_tr:
fn_tr[fn] = []
fn_tr[fn].append(tr)
for fn, traces_thisfile in fn_tr.items():
trtups = []
traces_thisfile.sort(key=lambda a: a.full_id)
for tr in traces_thisfile:
trtups.append(as_tuple(tr))
ensuredirs(fn)
try:
mseed_ext.store_traces(trtups,
fn,
record_length=record_length,
steim=steim)
except mseed_ext.MSeedError as e:
raise FileSaveError(
str(e) + ' (while storing traces to file \'%s\')' % fn)
return list(fn_tr.keys())
def create_scenario(self,
force=False,
interactive=True,
gf_store_superdirs=None,
make_map=True):
logger.info('Creating scenario...')
scenario = self.get_scenario()
self.create_project_dir(force)
util.ensuredir(self.get_gf_stores_dir())
data_dir = op.join(self.project_dir, self.data_dir)
util.ensuredir(data_dir)
scenario.dump(filename=op.join(data_dir, 'scenario.yml'))
if gf_store_superdirs is None:
engine1 = gf.LocalEngine(
use_config=True, store_superdirs=[self.get_gf_stores_dir()])
else:
engine1 = gf.LocalEngine(use_config=False,
store_superdirs=gf_store_superdirs)
scenario.init_modelling(engine=engine1)
scenario.ensure_gfstores(interactive=interactive)
self.symlink_gfstores(engine1)
engine2 = gf.LocalEngine(use_config=False,
store_superdirs=[self.get_gf_stores_dir()])
scenario.init_modelling(engine=engine2)
scenario.dump_data(path=data_dir)
if make_map:
scenario.make_map(op.join(self.project_dir, 'scenario_map.pdf'))
shutil.move(op.join(data_dir, 'sources.yml'),
op.join(data_dir, 'scenario_sources.yml'))
markers = scenario.get_onsets()
marker_path = op.join(data_dir, 'picks', 'picks.markers')
if markers:
util.ensuredirs(marker_path)
pmarker.save_markers(markers, marker_path)
def download_file(fn, dirpath):
url = base_url + '/' + fn
fpath = op.join(dirpath, fn)
logger.info('starting download of %s' % url)
util.ensuredirs(fpath)
f = urlopen(url)
fpath_tmp = fpath + '.%i.temp' % os.getpid()
g = open(fpath_tmp, 'wb')
while True:
data = f.read(1024)
if not data:
break
g.write(data)
g.close()
f.close()
os.rename(fpath_tmp, fpath)
logger.info('finished download of %s' % url)
def download_file(fn, dirpath):
import urllib2
url = base_url + '/' + fn
fpath = op.join(dirpath, fn)
logger.info('starting download of %s' % url)
util.ensuredirs(fpath)
f = urllib2.urlopen(url)
fpath_tmp = fpath + '.%i.temp' % os.getpid()
g = open(fpath_tmp, 'wb')
while True:
data = f.read(1024)
if not data:
break
g.write(data)
g.close()
f.close()
os.rename(fpath_tmp, fpath)
logger.info('finished download of %s' % url)
def iris_get_responses(stations, time, fn_template):
for sta in stations:
fn = fn_template % dict(
network=sta.network, station=sta.station, location=sta.location)
if not os.path.isfile(fn):
try:
fi = iris_ws.ws_resp(sta.network,
sta.station,
sta.location,
'*',
time=time)
util.ensuredirs(fn)
fo = open(fn, 'w')
while True:
data = fi.read(1024)
if not data:
break
fo.write(data)
fo.close()
fi.close()
except iris_ws.NotFound:
pass
for cha in sta.get_channels():
class DummyTrace:
pass
tr = DummyTrace()
tr.tmin = time
tr.tmax = time
tr.nslc_id = (sta.network, sta.station, sta.location, cha.name)
if os.path.exists(fn):
cha.inv_response = trace.InverseEvalresp(fn, tr)
else:
cha.inv_response = None
def available_tilenames(self):
if self._available_tilenames is None:
fpath = op.join(self.data_dir, 'available.list')
if op.exists(fpath):
with open(fpath, 'r') as f:
available = [s.strip() for s in f.readlines()]
else:
url = self.raw_data_url + '/'
f = urllib2.urlopen(url)
data = f.read()
available = re.findall(
r'([NS]\d\d[EW]\d\d\d)\.SRTMGL3\.hgt', data)
f.close()
util.ensuredirs(fpath)
with open(fpath, 'w') as f:
f.writelines('%s\n' % s for s in available)
self._available_tilenames = set(available)
return self._available_tilenames
def available_tilenames(self):
if self._available_tilenames is None:
fpath = op.join(self.data_dir, 'available.list')
if op.exists(fpath):
with open(fpath, 'r') as f:
available = [s.strip() for s in f.readlines()]
else:
url = self.raw_data_url + '/'
f = urlopen(url)
data = f.read().decode()
available = re.findall(r'([NS]\d\d[EW]\d\d\d)\.SRTMGL3\.hgt',
data)
f.close()
util.ensuredirs(fpath)
with open(fpath, 'w') as f:
f.writelines('%s\n' % s for s in available)
self._available_tilenames = set(available)
return self._available_tilenames
def save(traces,
filename_template,
additional={},
max_open_files=10,
overwrite=True):
fns = set()
open_files = {}
def close_files():
while open_files:
open_files.popitem()[1].close()
for tr in traces:
fn = tr.fill_template(filename_template, **additional)
if fn not in open_files:
if len(open_files) >= max_open_files:
close_files()
if fn not in fns:
if not overwrite and os.path.exists(fn):
raise FileSaveError('file exists: %s' % fn)
ensuredirs(fn)
open_files[fn] = open(fn, 'wa'[fn in fns])
fns.add(fn)
tf = TracesFileIO(open_files[fn])
tf.save([tr])
tf.close()
close_files()
return list(fns)
def save(traces,
filename_template,
format='mseed',
additional={},
stations=None,
overwrite=True):
'''Save traces to file(s).
:param traces: a trace or an iterable of traces to store
:param filename_template: filename template with placeholders for trace
metadata. Uses normal python '%%(placeholder)s' string templates.
The following placeholders are considered: ``network``,
``station``, ``location``, ``channel``, ``tmin``
(time of first sample), ``tmax`` (time of last sample),
``tmin_ms``, ``tmax_ms``, ``tmin_us``, ``tmax_us``. The versions
with '_ms' include milliseconds, the versions with '_us' include
microseconds.
:param format: %s
:param additional: dict with custom template placeholder fillins.
:param overwrite': if ``False``, raise an exception if file exists
:returns: list of generated filenames
.. note::
Network, station, location, and channel codes may be silently truncated
to file format specific maximum lengthes.
'''
if isinstance(traces, trace.Trace):
traces = [traces]
if format == 'from_extension':
format = os.path.splitext(filename_template)[1][1:]
if format == 'mseed':
return mseed.save(traces,
filename_template,
additional,
overwrite=overwrite)
elif format == 'gse2':
return gse2_io_wrap.save(traces,
filename_template,
additional,
overwrite=overwrite)
elif format == 'sac':
fns = []
for tr in traces:
fn = tr.fill_template(filename_template, **additional)
if not overwrite and os.path.exists(fn):
raise FileSaveError('file exists: %s' % fn)
util.ensuredirs(fn)
f = sac.SacFile(from_trace=tr)
if stations:
s = stations[tr.network, tr.station, tr.location]
f.stla = s.lat
f.stlo = s.lon
f.stel = s.elevation
f.stdp = s.depth
f.cmpinc = s.get_channel(tr.channel).dip + 90.
f.cmpaz = s.get_channel(tr.channel).azimuth
f.write(fn)
fns.append(fn)
return fns
elif format == 'text':
fns = []
for tr in traces:
fn = tr.fill_template(filename_template, **additional)
if not overwrite and os.path.exists(fn):
raise FileSaveError('file exists: %s' % fn)
util.ensuredirs(fn)
x, y = tr.get_xdata(), tr.get_ydata()
num.savetxt(fn, num.transpose((x, y)))
fns.append(fn)
return fns
elif format == 'yaff':
return yaff.save(traces,
filename_template,
additional,
overwrite=overwrite)
else:
raise UnsupportedFormat(format)
def main():
parser = OptionParser(usage=usage, description=description)
parser.add_option('--force',
dest='force',
action='store_true',
default=False,
help='allow recreation of output <directory>')
parser.add_option('--debug',
dest='debug',
action='store_true',
default=False,
help='print debugging information to stderr')
parser.add_option('--dry-run',
dest='dry_run',
action='store_true',
default=False,
help='show available stations/channels and exit '
'(do not download waveforms)')
parser.add_option('--continue',
dest='continue_',
action='store_true',
default=False,
help='continue download after a accident')
parser.add_option('--local-data',
dest='local_data',
action='append',
help='add file/directory with local data')
parser.add_option('--local-stations',
dest='local_stations',
action='append',
help='add local stations file')
parser.add_option('--selection',
dest='selection_file',
action='append',
help='add local stations file')
parser.add_option(
'--local-responses-resp',
dest='local_responses_resp',
action='append',
help='add file/directory with local responses in RESP format')
parser.add_option('--local-responses-pz',
dest='local_responses_pz',
action='append',
help='add file/directory with local pole-zero responses')
parser.add_option(
'--local-responses-stationxml',
dest='local_responses_stationxml',
help='add file with local response information in StationXML format')
parser.add_option(
'--window',
dest='window',
default='full',
help='set time window to choose [full, p, "<time-start>,<time-end>"'
'] (time format is YYYY-MM-DD HH:MM:SS)')
parser.add_option(
'--out-components',
choices=['enu', 'rtu'],
dest='out_components',
default='rtu',
help='set output component orientations to radial-transverse-up [rtu] '
'(default) or east-north-up [enu]')
parser.add_option('--out-units',
choices=['M', 'M/S', 'M/S**2'],
dest='output_units',
default='M',
help='set output units to displacement "M" (default),'
' velocity "M/S" or acceleration "M/S**2"')
parser.add_option(
'--padding-factor',
type=float,
default=3.0,
dest='padding_factor',
help='extend time window on either side, in multiples of 1/<fmin_hz> '
'(default: 5)')
parser.add_option(
'--zero-padding',
dest='zero_pad',
action='store_true',
default=False,
help='Extend traces by zero-padding if clean restitution requires'
'longer windows')
parser.add_option(
'--credentials',
dest='user_credentials',
action='append',
default=[],
metavar='SITE,USER,PASSWD',
help='user credentials for specific site to access restricted data '
'(this option can be repeated)')
parser.add_option(
'--token',
dest='auth_tokens',
metavar='SITE,FILENAME',
action='append',
default=[],
help='user authentication token for specific site to access '
'restricted data (this option can be repeated)')
parser.add_option(
'--sites',
dest='sites',
metavar='SITE1,SITE2,...',
default='geofon,iris,orfeus',
help='sites to query (available: %s, default: "%%default"' %
', '.join(g_sites_available))
parser.add_option(
'--band-codes',
dest='priority_band_code',
metavar='V,L,M,B,H,S,E,...',
default='B,H',
help='select and prioritize band codes (default: %default)')
parser.add_option(
'--instrument-codes',
dest='priority_instrument_code',
metavar='H,L,G,...',
default='H,L',
help='select and prioritize instrument codes (default: %default)')
parser.add_option('--radius-min',
dest='radius_min',
metavar='VALUE',
default=0.0,
type=float,
help='minimum radius [km]')
parser.add_option('--nstations-wanted',
dest='nstations_wanted',
metavar='N',
type=int,
help='number of stations to select initially')
(options, args) = parser.parse_args(sys.argv[1:])
print('Parsed arguments:', args)
if len(args) not in (10, 7, 6):
parser.print_help()
sys.exit(1)
if options.debug:
util.setup_logging(program_name, 'debug')
else:
util.setup_logging(program_name, 'info')
if options.local_responses_pz and options.local_responses_resp:
logger.critical('cannot use local responses in PZ and RESP '
'format at the same time')
sys.exit(1)
n_resp_opt = 0
for resp_opt in (options.local_responses_pz, options.local_responses_resp,
options.local_responses_stationxml):
if resp_opt:
n_resp_opt += 1
if n_resp_opt > 1:
logger.critical('can only handle local responses from either PZ or '
'RESP or StationXML. Cannot yet merge different '
'response formats.')
sys.exit(1)
if options.local_responses_resp and not options.local_stations:
logger.critical('--local-responses-resp can only be used '
'when --stations is also given.')
sys.exit(1)
try:
ename = ''
magnitude = None
mt = None
if len(args) == 10:
time = util.str_to_time(args[1] + ' ' + args[2])
lat = float(args[3])
lon = float(args[4])
depth = float(args[5]) * km
iarg = 6
elif len(args) == 7:
if args[2].find(':') == -1:
sname_or_date = None
lat = float(args[1])
lon = float(args[2])
event = None
time = None
else:
sname_or_date = args[1] + ' ' + args[2]
iarg = 3
elif len(args) == 6:
sname_or_date = args[1]
iarg = 2
if len(args) in (7, 6) and sname_or_date is not None:
events = get_events_by_name_or_date([sname_or_date],
catalog=geofon)
if len(events) == 0:
logger.critical('no event found')
sys.exit(1)
elif len(events) > 1:
logger.critical('more than one event found')
sys.exit(1)
event = events[0]
time = event.time
lat = event.lat
lon = event.lon
depth = event.depth
ename = event.name
magnitude = event.magnitude
mt = event.moment_tensor
radius = float(args[iarg]) * km
fmin = float(args[iarg + 1])
sample_rate = float(args[iarg + 2])
eventname = args[iarg + 3]
cwd = str(sys.argv[1])
event_dir = op.join(cwd, 'data', 'events', eventname)
output_dir = op.join(event_dir, 'waveforms')
except:
raise
parser.print_help()
sys.exit(1)
if options.force and op.isdir(event_dir):
if not options.continue_:
shutil.rmtree(event_dir)
if op.exists(event_dir) and not options.continue_:
logger.critical(
'directory "%s" exists. Delete it first or use the --force option'
% event_dir)
sys.exit(1)
util.ensuredir(output_dir)
if time is not None:
event = model.Event(time=time,
lat=lat,
lon=lon,
depth=depth,
name=ename,
magnitude=magnitude,
moment_tensor=mt)
if options.window == 'full':
if event is None:
logger.critical('need event for --window=full')
sys.exit(1)
low_velocity = 1500.
timewindow = VelocityWindow(low_velocity,
tpad=options.padding_factor / fmin)
tmin, tmax = timewindow(time, radius, depth)
elif options.window == 'p':
if event is None:
logger.critical('need event for --window=p')
sys.exit(1)
phases = list(map(cake.PhaseDef, 'P p'.split()))
emod = cake.load_model()
tpad = options.padding_factor / fmin
timewindow = PhaseWindow(emod, phases, -tpad, tpad)
arrivaltimes = []
for dist in num.linspace(0, radius, 20):
try:
arrivaltimes.extend(timewindow(time, dist, depth))
except NoArrival:
pass
if not arrivaltimes:
logger.error('required phase arrival not found')
sys.exit(1)
tmin = min(arrivaltimes)
tmax = max(arrivaltimes)
else:
try:
stmin, stmax = options.window.split(',')
tmin = util.str_to_time(stmin.strip())
tmax = util.str_to_time(stmax.strip())
timewindow = FixedWindow(tmin, tmax)
except ValueError:
logger.critical('invalid argument to --window: "%s"' %
options.window)
sys.exit(1)
if event is not None:
event.name = eventname
tfade = tfade_factor / fmin
tpad = tfade
tmin -= tpad
tmax += tpad
tinc = None
priority_band_code = options.priority_band_code.split(',')
for s in priority_band_code:
if len(s) != 1:
logger.critical('invalid band code: %s' % s)
priority_instrument_code = options.priority_instrument_code.split(',')
for s in priority_instrument_code:
if len(s) != 1:
logger.critical('invalid instrument code: %s' % s)
station_query_conf = dict(latitude=lat,
longitude=lon,
minradius=options.radius_min * km * cake.m2d,
maxradius=radius * cake.m2d,
channel=','.join('%s??' % s
for s in priority_band_code))
target_sample_rate = sample_rate
fmax = target_sample_rate
# target_sample_rate = None
# priority_band_code = ['H', 'B', 'M', 'L', 'V', 'E', 'S']
priority_units = ['M/S', 'M', 'M/S**2']
# output_units = 'M'
sites = [x.strip() for x in options.sites.split(',') if x.strip()]
for site in sites:
if site not in g_sites_available:
logger.critical('unknown FDSN site: %s' % site)
sys.exit(1)
for s in options.user_credentials:
try:
site, user, passwd = s.split(',')
g_user_credentials[site] = user, passwd
except ValueError:
logger.critical('invalid format for user credentials: "%s"' % s)
sys.exit(1)
for s in options.auth_tokens:
try:
site, token_filename = s.split(',')
with open(token_filename, 'r') as f:
g_auth_tokens[site] = f.read()
except (ValueError, OSError, IOError):
logger.critical('cannot get token from file: %s' % token_filename)
sys.exit(1)
fn_template0 = \
'data_%(network)s.%(station)s.%(location)s.%(channel)s_%(tmin)s.mseed'
fn_template_raw = op.join(output_dir, 'raw', fn_template0)
fn_stations_raw = op.join(output_dir, 'stations.raw.txt')
fn_template_rest = op.join(output_dir, 'rest', fn_template0)
fn_commandline = op.join(output_dir, 'beatdown.command')
ftap = (ffade_factors[0] * fmin, fmin, fmax, ffade_factors[1] * fmax)
# chapter 1: download
sxs = []
for site in sites:
try:
extra_args = {
'iris': dict(matchtimeseries=True),
}.get(site, {})
extra_args.update(station_query_conf)
if site == 'geonet':
extra_args.update(starttime=tmin, endtime=tmax)
else:
extra_args.update(startbefore=tmax,
endafter=tmin,
includerestricted=(site in g_user_credentials
or site in g_auth_tokens))
logger.info('downloading channel information (%s)' % site)
sx = fdsn.station(site=site,
format='text',
level='channel',
**extra_args)
except fdsn.EmptyResult:
logger.error('No stations matching given criteria. (%s)' % site)
sx = None
if sx is not None:
sxs.append(sx)
if all(sx is None for sx in sxs) and not options.local_data:
sys.exit(1)
nsl_to_sites = defaultdict(list)
nsl_to_station = {}
if options.selection_file:
logger.info('using stations from stations file!')
stations = []
for fn in options.selection_file:
stations.extend(model.load_stations(fn))
nsls_selected = set(s.nsl() for s in stations)
else:
nsls_selected = None
for sx, site in zip(sxs, sites):
site_stations = sx.get_pyrocko_stations()
for s in site_stations:
nsl = s.nsl()
nsl_to_sites[nsl].append(site)
if nsl not in nsl_to_station:
if nsls_selected:
if nsl in nsls_selected:
nsl_to_station[nsl] = s
else:
nsl_to_station[
nsl] = s # using first site with this station
logger.info('number of stations found: %i' % len(nsl_to_station))
# station weeding
if options.nstations_wanted:
nsls_selected = None
stations_all = [
nsl_to_station[nsl_] for nsl_ in sorted(nsl_to_station.keys())
]
for s in stations_all:
s.set_event_relative_data(event)
stations_selected = weeding.weed_stations(stations_all,
options.nstations_wanted)[0]
nsls_selected = set(s.nsl() for s in stations_selected)
logger.info('number of stations selected: %i' % len(nsls_selected))
if tinc is None:
tinc = 3600.
have_data = set()
if options.continue_:
fns = glob.glob(fn_template_raw % starfill())
p = pile.make_pile(fns)
else:
fns = []
have_data_site = {}
could_have_data_site = {}
for site in sites:
have_data_site[site] = set()
could_have_data_site[site] = set()
available_through = defaultdict(set)
it = 0
nt = int(math.ceil((tmax - tmin) / tinc))
for it in range(nt):
tmin_win = tmin + it * tinc
tmax_win = min(tmin + (it + 1) * tinc, tmax)
logger.info('time window %i/%i (%s - %s)' %
(it + 1, nt, util.tts(tmin_win), util.tts(tmax_win)))
have_data_this_window = set()
if options.continue_:
trs_avail = p.all(tmin=tmin_win, tmax=tmax_win, load_data=False)
for tr in trs_avail:
have_data_this_window.add(tr.nslc_id)
for site, sx in zip(sites, sxs):
if sx is None:
continue
selection = []
channels = sx.choose_channels(
target_sample_rate=target_sample_rate,
priority_band_code=priority_band_code,
priority_units=priority_units,
priority_instrument_code=priority_instrument_code,
timespan=(tmin_win, tmax_win))
for nslc in sorted(channels.keys()):
if nsls_selected is not None and nslc[:3] not in nsls_selected:
continue
could_have_data_site[site].add(nslc)
if nslc not in have_data_this_window:
channel = channels[nslc]
if event:
lat_, lon_ = event.lat, event.lon
else:
lat_, lon_ = lat, lon
try:
dist = orthodrome.distance_accurate50m_numpy(
lat_, lon_, channel.latitude.value,
channel.longitude.value)
except:
dist = orthodrome.distance_accurate50m_numpy(
lat_, lon_, channel.latitude, channel.longitude)
if event:
depth_ = event.depth
time_ = event.time
else:
depth_ = None
time_ = None
tmin_, tmax_ = timewindow(time_, dist, depth_)
tmin_this = tmin_ - tpad
tmax_this = float(tmax_ + tpad)
tmin_req = max(tmin_win, tmin_this)
tmax_req = min(tmax_win, tmax_this)
if channel.sample_rate:
try:
deltat = 1.0 / int(channel.sample_rate.value)
except:
deltat = 1.0 / int(channel.sample_rate)
else:
deltat = 1.0
if tmin_req < tmax_req:
logger.debug('deltat %f' % deltat)
# extend time window by some samples because otherwise
# sometimes gaps are produced
# apparently the WS are only sensitive to full seconds
# round to avoid gaps, increase safetiy window
selection.append(nslc +
(math.floor(tmin_req - deltat * 20.0),
math.ceil(tmax_req + deltat * 20.0)))
if options.dry_run:
for (net, sta, loc, cha, tmin, tmax) in selection:
available_through[net, sta, loc, cha].add(site)
else:
neach = 100
i = 0
nbatches = ((len(selection) - 1) // neach) + 1
while i < len(selection):
selection_now = selection[i:i + neach]
f = tempfile.NamedTemporaryFile()
try:
sbatch = ''
if nbatches > 1:
sbatch = ' (batch %i/%i)' % (
(i // neach) + 1, nbatches)
logger.info('downloading data (%s)%s' % (site, sbatch))
data = fdsn.dataselect(site=site,
selection=selection_now,
**get_user_credentials(site))
while True:
buf = data.read(1024)
if not buf:
break
f.write(buf)
f.flush()
trs = io.load(f.name)
for tr in trs:
tr.fix_deltat_rounding_errors()
logger.debug('cutting window: %f - %f' %
(tmin_win, tmax_win))
logger.debug(
'available window: %f - %f, nsamples: %g' %
(tr.tmin, tr.tmax, tr.ydata.size))
try:
logger.debug('tmin before snap %f' % tr.tmin)
tr.snap(interpolate=True)
logger.debug('tmin after snap %f' % tr.tmin)
tr.chop(tmin_win,
tmax_win,
snap=(math.floor, math.ceil),
include_last=True)
logger.debug(
'cut window: %f - %f, nsamles: %g' %
(tr.tmin, tr.tmax, tr.ydata.size))
have_data.add(tr.nslc_id)
have_data_site[site].add(tr.nslc_id)
except trace.NoData:
pass
fns2 = io.save(trs, fn_template_raw)
for fn in fns2:
if fn in fns:
logger.warn('overwriting file %s', fn)
fns.extend(fns2)
except fdsn.EmptyResult:
pass
except HTTPError:
logger.warn('an error occurred while downloading data '
'for channels \n %s' %
'\n '.join('.'.join(x[:4])
for x in selection_now))
f.close()
i += neach
if options.dry_run:
nslcs = sorted(available_through.keys())
all_channels = defaultdict(set)
all_stations = defaultdict(set)
def plural_s(x):
return '' if x == 1 else 's'
for nslc in nslcs:
sites = tuple(sorted(available_through[nslc]))
logger.info('selected: %s.%s.%s.%s from site%s %s' %
(nslc + (plural_s(len(sites)), '+'.join(sites))))
all_channels[sites].add(nslc)
all_stations[sites].add(nslc[:3])
nchannels_all = 0
nstations_all = 0
for sites in sorted(all_channels.keys(),
key=lambda sites: (-len(sites), sites)):
nchannels = len(all_channels[sites])
nstations = len(all_stations[sites])
nchannels_all += nchannels
nstations_all += nstations
logger.info('selected (%s): %i channel%s (%i station%s)' %
('+'.join(sites), nchannels, plural_s(nchannels),
nstations, plural_s(nstations)))
logger.info('selected total: %i channel%s (%i station%s)' %
(nchannels_all, plural_s(nchannels_all), nstations_all,
plural_s(nstations_all)))
logger.info('dry run done.')
sys.exit(0)
for nslc in have_data:
# if we are in continue mode, we have to guess where the data came from
if not any(nslc in have_data_site[site] for site in sites):
for site in sites:
if nslc in could_have_data_site[site]:
have_data_site[site].add(nslc)
sxs = {}
for site in sites:
selection = []
for nslc in sorted(have_data_site[site]):
selection.append(nslc + (tmin - tpad, tmax + tpad))
if selection:
logger.info('downloading response information (%s)' % site)
sxs[site] = fdsn.station(site=site,
level='response',
selection=selection)
sxs[site].dump_xml(filename=op.join(output_dir, 'stations.%s.xml' %
site))
# chapter 1.5: inject local data
if options.local_data:
have_data_site['local'] = set()
plocal = pile.make_pile(options.local_data, fileformat='detect')
logger.info(
'Importing local data from %s between %s (%f) and %s (%f)' %
(options.local_data, util.time_to_str(tmin), tmin,
util.time_to_str(tmax), tmax))
for traces in plocal.chopper_grouped(gather=lambda tr: tr.nslc_id,
tmin=tmin,
tmax=tmax,
tinc=tinc):
for tr in traces:
if tr.nslc_id not in have_data:
fns.extend(io.save(traces, fn_template_raw))
have_data_site['local'].add(tr.nslc_id)
have_data.add(tr.nslc_id)
sites.append('local')
if options.local_responses_pz:
sxs['local'] = epz.make_stationxml(
epz.iload(options.local_responses_pz))
if options.local_responses_resp:
local_stations = []
for fn in options.local_stations:
local_stations.extend(model.load_stations(fn))
sxs['local'] = resp.make_stationxml(
local_stations, resp.iload(options.local_responses_resp))
if options.local_responses_stationxml:
sxs['local'] = stationxml.load_xml(
filename=options.local_responses_stationxml)
# chapter 1.6: dump raw data stations file
nsl_to_station = {}
for site in sites:
if site in sxs:
stations = sxs[site].get_pyrocko_stations(timespan=(tmin, tmax))
for s in stations:
nsl = s.nsl()
if nsl not in nsl_to_station:
nsl_to_station[nsl] = s
stations = [nsl_to_station[nsl_] for nsl_ in sorted(nsl_to_station.keys())]
util.ensuredirs(fn_stations_raw)
model.dump_stations(stations, fn_stations_raw)
dump_commandline(sys.argv, fn_commandline)
# chapter 2: restitution
if not fns:
logger.error('no data available')
sys.exit(1)
p = pile.make_pile(fns, show_progress=False)
p.get_deltatmin()
otinc = None
if otinc is None:
otinc = nice_seconds_floor(p.get_deltatmin() * 500000.)
otinc = 3600.
otmin = math.floor(p.tmin / otinc) * otinc
otmax = math.ceil(p.tmax / otinc) * otinc
otpad = tpad * 2
fns = []
rest_traces_b = []
win_b = None
for traces_a in p.chopper_grouped(gather=lambda tr: tr.nslc_id,
tmin=otmin,
tmax=otmax,
tinc=otinc,
tpad=otpad):
rest_traces_a = []
win_a = None
for tr in traces_a:
win_a = tr.wmin, tr.wmax
if win_b and win_b[0] >= win_a[0]:
fns.extend(cut_n_dump(rest_traces_b, win_b, fn_template_rest))
rest_traces_b = []
win_b = None
response = None
failure = []
for site in sites:
try:
if site not in sxs:
continue
logger.debug('Getting response for %s' % tr.__str__())
response = sxs[site].get_pyrocko_response(
tr.nslc_id,
timespan=(tr.tmin, tr.tmax),
fake_input_units=options.output_units)
break
except stationxml.NoResponseInformation:
failure.append('%s: no response information' % site)
except stationxml.MultipleResponseInformation:
failure.append('%s: multiple response information' % site)
if response is None:
failure = ', '.join(failure)
else:
failure = ''
try:
if tr.tmin > tmin and options.zero_pad:
logger.warning(
'Trace too short for clean restitution in '
'desired frequency band -> zero-padding!')
tr.extend(tr.tmin - tfade, tr.tmax + tfade, 'repeat')
rest_tr = tr.transfer(tfade, ftap, response, invert=True)
rest_traces_a.append(rest_tr)
except (trace.TraceTooShort, trace.NoData):
failure = 'trace too short'
if failure:
logger.warn('failed to restitute trace %s.%s.%s.%s (%s)' %
(tr.nslc_id + (failure, )))
if rest_traces_b:
rest_traces = trace.degapper(rest_traces_b + rest_traces_a,
deoverlap='crossfade_cos')
fns.extend(cut_n_dump(rest_traces, win_b, fn_template_rest))
rest_traces_a = []
if win_a:
for tr in rest_traces:
try:
rest_traces_a.append(
tr.chop(win_a[0], win_a[1] + otpad, inplace=False))
except trace.NoData:
pass
rest_traces_b = rest_traces_a
win_b = win_a
fns.extend(cut_n_dump(rest_traces_b, win_b, fn_template_rest))
# chapter 3: rotated restituted traces for inspection
if not event:
sys.exit(0)
fn_template1 = \
'DISPL.%(network)s.%(station)s.%(location)s.%(channel)s'
fn_waveforms = op.join(output_dir, 'prepared', fn_template1)
fn_stations = op.join(output_dir, 'stations.prepared.txt')
fn_event = op.join(event_dir, 'event.txt')
fn_event_yaml = op.join(event_dir, 'event.yaml')
nsl_to_station = {}
for site in sites:
if site in sxs:
stations = sxs[site].get_pyrocko_stations(timespan=(tmin, tmax))
for s in stations:
nsl = s.nsl()
if nsl not in nsl_to_station:
nsl_to_station[nsl] = s
p = pile.make_pile(fns, show_progress=False)
deltat = None
if sample_rate is not None:
deltat = 1.0 / sample_rate
traces_beat = []
used_stations = []
for nsl, s in nsl_to_station.items():
s.set_event_relative_data(event)
traces = p.all(trace_selector=lambda tr: tr.nslc_id[:3] == nsl)
if options.out_components == 'rtu':
pios = s.guess_projections_to_rtu(out_channels=('R', 'T', 'Z'))
elif options.out_components == 'enu':
pios = s.guess_projections_to_enu(out_channels=('E', 'N', 'Z'))
else:
assert False
for (proj, in_channels, out_channels) in pios:
proc = trace.project(traces, proj, in_channels, out_channels)
for tr in proc:
tr_beat = heart.SeismicDataset.from_pyrocko_trace(tr)
traces_beat.append(tr_beat)
for ch in out_channels:
if ch.name == tr.channel:
s.add_channel(ch)
if proc:
io.save(proc, fn_waveforms)
used_stations.append(s)
stations = list(used_stations)
util.ensuredirs(fn_stations)
model.dump_stations(stations, fn_stations)
model.dump_events([event], fn_event)
from pyrocko.guts import dump
dump([event], filename=fn_event_yaml)
utility.dump_objects(op.join(cwd, 'seismic_data.pkl'),
outlist=[stations, traces_beat])
logger.info('prepared waveforms from %i stations' % len(stations))
def link_test_data(path, dest=None):
if dest is None:
dest = path
fn = get_test_data(path)
util.ensuredirs(dest)
os.symlink(fn, dest.rstrip(os.sep))
def save_kiwi_dataset(acc, stations, traces, event, config):
if config.has('data_dir'):
data_dir = config.path('data_dir')
if os.path.exists(data_dir):
shutil.rmtree(data_dir)
if config.has('skeleton_dir'):
copy_files(config.path('skeleton_dir'), config.path('main_dir'))
if config.has('raw_trace_path'):
trace_selector = None
if config.has('station_filter'):
trace_selector = lambda tr: get_nsl(tr) in stations and config.station_filter(stations[get_nsl(tr)])
for raw_traces in acc.iter_traces(trace_selector=trace_selector):
io.save(raw_traces, config.path('raw_trace_path'))
eventfn = config.path('event_info_path')
util.ensuredirs(eventfn)
save_event_info_file(eventfn, event)
dstations = stations.values()
dstations.sort( lambda a,b: cmp(a.dist_m, b.dist_m) )
# gather traces by station
dataset = []
used_channels = {}
for station in dstations:
station_traces = []
for tr in traces:
if get_nsl(tr) == get_nsl(station):
if tr.channel in config.wanted_channels:
station_traces.append(tr)
if get_nsl(tr) not in used_channels:
used_channels[get_nsl(tr)] = []
used_channels[get_nsl(tr)].append(station.get_channel(tr.channel))
station_traces.sort(lambda a,b: cmp(a.channel, b.channel))
kiwi_components = ''
for tr in station_traces:
kiwi_components += config.kiwi_component_map[tr.channel]
if station_traces:
dataset.append( (station, kiwi_components, station_traces) )
if config.has('stations_path'):
fpath = config.path('stations_path')
util.ensuredirs(fpath)
ddstations = copy.deepcopy(dstations)
for sta in ddstations:
if get_nsl(sta) in used_channels:
sta.set_channels(used_channels[get_nsl(sta)])
model.dump_stations(ddstations, fpath)
if config.has('receivers_path'):
fpath = config.path('receivers_path')
util.ensuredirs(fpath)
f = open(fpath, 'w')
iref = 1
nsets = 1
if config.has('nsets'):
nsets = config.nsets
for station, components, traces in dataset:
nsl = '.'.join((get_nsl(station)))
for i in range(nsets):
depth = 0.0
if station.depth is not None:
depth = station.depth
if config.has('receivers_path'):
f.write('%15.8e %15.8e %15.8e %3s %-15s\n' % (station.lat, station.lon, depth, components, nsl) )
for tr in traces:
tr = tr.copy()
if config.trace_time_zero == 'event':
tr.shift(-event.time)
ydata = tr.get_ydata()
ydata *= config.trace_factor
fn = config.path('displacement_trace_path', {
'ireceiver': iref,
'component': config.kiwi_component_map[tr.channel],
'network': tr.network,
'station': tr.station,
'location': tr.location,
'channel': tr.channel})
io.save([tr], fn)
iref += 1
if config.has('receivers_path'):
f.close()
if config.has('reference_time_path'):
fpath = config.path('reference_time_path')
f = open(fpath, 'w')
f.write('%i %s\n' % (event.time,
time.strftime('%Y/%m/%d %H:%M:%S',
time.gmtime(event.time))))
f.close()
if config.has('source_origin_path'):
fpath = config.path('source_origin_path')
f = open(fpath, 'w')
t = 0.
if config.trace_time_zero == 'system':
t = event.time
f.write('%e %e %f\n' % (event.lat, event.lon, t))
f.close()
def write_config(conf):
conf_path = expand(conf_path_tmpl)
util.ensuredirs(conf_path)
dump(conf, filename=conf_path)
def write_config(conf, config_name='config'):
conf_path = expand(make_conf_path_tmpl(config_name))
util.ensuredirs(conf_path)
dump(conf, filename=conf_path)
def get_table(self, grid, receivers):
distances = grid.lateral_distances(receivers)
r_depths = num.array([r.z for r in receivers], dtype=num.float)
s_depths = grid.depths()
x_bounds = num.array(
[[num.min(r_depths), num.max(r_depths)],
[num.min(s_depths), num.max(s_depths)],
[num.min(distances), num.max(distances)]],
dtype=num.float)
x_tolerance = num.array((grid.dz / 2., grid.dz / 2., grid.dx / 2.))
t_tolerance = grid.max_delta() / (self.get_vmin() * 5.)
earthmodel = self.get_earthmodel()
interpolated_tts = {}
for phase_def in self._tabulated_phases:
ttt_hash = self.ttt_hash(earthmodel, phase_def.phases, x_bounds,
x_tolerance, t_tolerance)
fpath = self.ttt_path(ttt_hash)
if not op.exists(fpath):
def evaluate(args):
receiver_depth, source_depth, x = args
t = []
rays = earthmodel.arrivals(phases=phase_def.phases,
distances=[x * cake.m2d],
zstart=source_depth,
zstop=receiver_depth)
for ray in rays:
t.append(ray.t)
if t:
return min(t)
else:
return None
logger.info('prepare tabulated phases: %s [%s]' %
(phase_def.id, ttt_hash))
sptree = spit.SPTree(f=evaluate,
ftol=t_tolerance,
xbounds=x_bounds,
xtols=x_tolerance)
util.ensuredirs(fpath)
sptree.dump(filename=fpath)
else:
sptree = spit.SPTree(filename=fpath)
interpolated_tts["stored:" + str(phase_def.id)] = sptree
arrivals = num.zeros(distances.shape)
def interpolate(phase_id):
return interpolated_tts[phase_id].interpolate_many
for i_r, r in enumerate(receivers):
r_depths = num.zeros(distances.shape[0]) + r.z
coords = num.zeros((distances.shape[0], 3))
coords[:, 0] = r_depths
coords[:, 1] = s_depths
coords[:, 2] = distances[:, i_r]
arr = self.timing.evaluate(interpolate, coords)
arrivals[:, i_r] = arr
return arrivals * self.factor + self.offset
filename=options.local_responses_stationxml)
# chapter 1.6: dump raw data stations file
nsl_to_station = {}
for site in sites:
if site in sxs:
stations = sxs[site].get_pyrocko_stations(timespan=(tmin, tmax))
for s in stations:
nsl = s.nsl()
if nsl not in nsl_to_station:
nsl_to_station[nsl] = s
stations = [nsl_to_station[nsl_] for nsl_ in sorted(nsl_to_station.keys())]
util.ensuredirs(fn_stations_raw)
model.dump_stations(stations, fn_stations_raw)
dump_commandline(sys.argv, fn_commandline)
# chapter 2: restitution
if not fns:
logger.error('no data available')
sys.exit(1)
p = pile.make_pile(fns, show_progress=False)
p.get_deltatmin()
otinc = None
if otinc is None:
otinc = nice_seconds_floor(p.get_deltatmin() * 500000.)
def main():
parser = OptionParser(usage=usage, description=description)
parser.add_option(
"--force",
dest="force",
action="store_true",
default=False,
help="allow recreation of output <directory>",
)
parser.add_option(
"--debug",
dest="debug",
action="store_true",
default=False,
help="print debugging information to stderr",
)
parser.add_option(
"--dry-run",
dest="dry_run",
action="store_true",
default=False,
help="show available stations/channels and exit "
"(do not download waveforms)",
)
parser.add_option(
"--continue",
dest="continue_",
action="store_true",
default=False,
help="continue download after a accident",
)
parser.add_option(
"--local-data",
dest="local_data",
action="append",
help="add file/directory with local data",
)
parser.add_option(
"--local-stations",
dest="local_stations",
action="append",
help="add local stations file",
)
parser.add_option(
"--local-responses-resp",
dest="local_responses_resp",
action="append",
help="add file/directory with local responses in RESP format",
)
parser.add_option(
"--local-responses-pz",
dest="local_responses_pz",
action="append",
help="add file/directory with local pole-zero responses",
)
parser.add_option(
"--local-responses-stationxml",
dest="local_responses_stationxml",
help="add file with local response information in StationXML format",
)
parser.add_option(
"--window",
dest="window",
default="full",
help='set time window to choose [full, p, "<time-start>,<time-end>"'
"] (time format is YYYY-MM-DD HH:MM:SS)",
)
parser.add_option(
"--out-components",
choices=["enu", "rtu"],
dest="out_components",
default="rtu",
help="set output component orientations to radial-transverse-up [rtu] "
"(default) or east-north-up [enu]",
)
parser.add_option(
"--padding-factor",
type=float,
default=3.0,
dest="padding_factor",
help="extend time window on either side, in multiples of 1/<fmin_hz> "
"(default: 5)",
)
parser.add_option(
"--credentials",
dest="user_credentials",
action="append",
default=[],
metavar="SITE,USER,PASSWD",
help="user credentials for specific site to access restricted data "
"(this option can be repeated)",
)
parser.add_option(
"--token",
dest="auth_tokens",
metavar="SITE,FILENAME",
action="append",
default=[],
help="user authentication token for specific site to access "
"restricted data (this option can be repeated)",
)
parser.add_option(
"--sites",
dest="sites",
metavar="SITE1,SITE2,...",
# default='bgr',
default="http://ws.gpi.kit.edu,bgr,http://188.246.25.142:8080",
help='sites to query (available: %s, default: "%%default"' %
", ".join(g_sites_available),
)
parser.add_option(
"--band-codes",
dest="priority_band_code",
metavar="V,L,M,B,H,S,E,...",
default="V,L,M,B,H,E",
help="select and prioritize band codes (default: %default)",
)
parser.add_option(
"--instrument-codes",
dest="priority_instrument_code",
metavar="H,L,G,...",
default="H,L,O,",
help="select and prioritize instrument codes (default: %default)",
)
parser.add_option(
"--radius-min",
dest="radius_min",
metavar="VALUE",
default=0.0,
type=float,
help="minimum radius [km]",
)
parser.add_option(
"--tinc",
dest="tinc",
metavar="VALUE",
default=3600.0 * 12.0,
type=float,
help="length of seperate saved files in s",
)
parser.add_option(
"--nstations-wanted",
dest="nstations_wanted",
metavar="N",
type=int,
help="number of stations to select initially",
)
(options, args) = parser.parse_args(sys.argv[1:])
if len(args) not in (9, 6, 5):
parser.print_help()
sys.exit(1)
if options.debug:
util.setup_logging(program_name, "debug")
else:
util.setup_logging(program_name, "info")
if options.local_responses_pz and options.local_responses_resp:
logger.critical("cannot use local responses in PZ and RESP "
"format at the same time")
sys.exit(1)
n_resp_opt = 0
for resp_opt in (
options.local_responses_pz,
options.local_responses_resp,
options.local_responses_stationxml,
):
if resp_opt:
n_resp_opt += 1
if n_resp_opt > 1:
logger.critical("can only handle local responses from either PZ or "
"RESP or StationXML. Cannot yet merge different "
"response formats.")
sys.exit(1)
if options.local_responses_resp and not options.local_stations:
logger.critical("--local-responses-resp can only be used "
"when --stations is also given.")
sys.exit(1)
try:
ename = ""
magnitude = None
mt = None
if len(args) == 9:
time = util.str_to_time(args[0] + " " + args[1])
lat = float(args[2])
lon = float(args[3])
depth = float(args[4]) * km
iarg = 5
elif len(args) == 6:
if args[1].find(":") == -1:
sname_or_date = None
lat = float(args[0])
lon = float(args[1])
event = None
time = None
else:
sname_or_date = args[0] + " " + args[1]
iarg = 2
elif len(args) == 5:
sname_or_date = args[0]
iarg = 1
if len(args) in (6, 5) and sname_or_date is not None:
events = get_events_by_name_or_date([sname_or_date],
catalog=geofon)
if len(events) == 0:
logger.critical("no event found")
sys.exit(1)
elif len(events) > 1:
logger.critical("more than one event found")
sys.exit(1)
event = events[0]
time = event.time
lat = event.lat
lon = event.lon
depth = event.depth
ename = event.name
magnitude = event.magnitude
mt = event.moment_tensor
radius = float(args[iarg]) * km
fmin = float(args[iarg + 1])
sample_rate = float(args[iarg + 2])
eventname = args[iarg + 3]
event_dir = op.join("data", "events", eventname)
output_dir = op.join(event_dir, "waveforms")
except:
raise
parser.print_help()
sys.exit(1)
if options.force and op.isdir(event_dir):
if not options.continue_:
shutil.rmtree(event_dir)
if op.exists(event_dir) and not options.continue_:
logger.critical(
'directory "%s" exists. Delete it first or use the --force option'
% event_dir)
sys.exit(1)
util.ensuredir(output_dir)
if time is not None:
event = model.Event(
time=time,
lat=lat,
lon=lon,
depth=depth,
name=ename,
magnitude=magnitude,
moment_tensor=mt,
)
if options.window == "full":
if event is None:
logger.critical("need event for --window=full")
sys.exit(1)
low_velocity = 1500.0
timewindow = VelocityWindow(low_velocity,
tpad=options.padding_factor / fmin)
tmin, tmax = timewindow(time, radius, depth)
elif options.window == "p":
if event is None:
logger.critical("need event for --window=p")
sys.exit(1)
phases = list(map(cake.PhaseDef, "P p".split()))
emod = cake.load_model()
tpad = options.padding_factor / fmin
timewindow = PhaseWindow(emod, phases, -tpad, tpad)
arrivaltimes = []
for dist in num.linspace(0, radius, 20):
try:
arrivaltimes.extend(timewindow(time, dist, depth))
except NoArrival:
pass
if not arrivaltimes:
logger.error("required phase arrival not found")
sys.exit(1)
tmin = min(arrivaltimes)
tmax = max(arrivaltimes)
else:
try:
stmin, stmax = options.window.split(",")
tmin = util.str_to_time(stmin.strip())
tmax = util.str_to_time(stmax.strip())
timewindow = FixedWindow(tmin, tmax)
except ValueError:
logger.critical('invalid argument to --window: "%s"' %
options.window)
sys.exit(1)
if event is not None:
event.name = eventname
tlen = tmax - tmin
tfade = tfade_factor / fmin
tpad = tfade
tmin -= tpad
tmax += tpad
priority_band_code = options.priority_band_code.split(",")
for s in priority_band_code:
if len(s) != 1:
logger.critical("invalid band code: %s" % s)
priority_instrument_code = options.priority_instrument_code.split(",")
for s in priority_instrument_code:
if len(s) != 1:
logger.critical("invalid instrument code: %s" % s)
station_query_conf = dict(
latitude=lat,
longitude=lon,
minradius=options.radius_min * km * cake.m2d,
maxradius=radius * cake.m2d,
channel=",".join("?%s?" % s for s in priority_band_code),
)
target_sample_rate = sample_rate
fmax = target_sample_rate
# target_sample_rate = None
# priority_band_code = ['H', 'B', 'M', 'L', 'V', 'E', 'S']
priority_units = ["M/S", "M", "M/S**2"]
output_units = "M"
sites = [x.strip() for x in options.sites.split(",") if x.strip()]
tinc = options.tinc
# for site in sites:
# if site not in g_sites_available:
# logger.critical('unknown FDSN site: %s' % site)
# sys.exit(1)
for s in options.user_credentials:
try:
site, user, passwd = s.split(",")
g_user_credentials[site] = user, passwd
except ValueError:
logger.critical('invalid format for user credentials: "%s"' % s)
sys.exit(1)
for s in options.auth_tokens:
try:
site, token_filename = s.split(",")
with open(token_filename, "r") as f:
g_auth_tokens[site] = f.read()
except (ValueError, OSError, IOError):
logger.critical("cannot get token from file: %s" % token_filename)
sys.exit(1)
fn_template0 = (
"data_%(network)s.%(station)s.%(location)s.%(channel)s_%(tmin)s.mseed")
fn_template_raw = op.join(output_dir, "raw", fn_template0)
fn_template_raw_folder = op.join(output_dir, "raw/", "traces.mseed")
fn_stations_raw = op.join(output_dir, "stations.raw.txt")
fn_template_rest = op.join(output_dir, "rest", fn_template0)
fn_commandline = op.join(output_dir, "seigerdown.command")
ftap = (ffade_factors[0] * fmin, fmin, fmax, ffade_factors[1] * fmax)
# chapter 1: download
sxs = []
for site in sites:
try:
extra_args = {
"iris": dict(matchtimeseries=True),
}.get(site, {})
extra_args.update(station_query_conf)
if site == "geonet":
extra_args.update(starttime=tmin, endtime=tmax)
else:
extra_args.update(
startbefore=tmax,
endafter=tmin,
includerestricted=(site in g_user_credentials
or site in g_auth_tokens),
)
logger.info("downloading channel information (%s)" % site)
sx = fdsn.station(site=site,
format="text",
level="channel",
**extra_args)
except fdsn.EmptyResult:
logger.error("No stations matching given criteria. (%s)" % site)
sx = None
if sx is not None:
sxs.append(sx)
if all(sx is None for sx in sxs) and not options.local_data:
sys.exit(1)
nsl_to_sites = defaultdict(list)
nsl_to_station = {}
for sx, site in zip(sxs, sites):
site_stations = sx.get_pyrocko_stations()
for s in site_stations:
nsl = s.nsl()
nsl_to_sites[nsl].append(site)
if nsl not in nsl_to_station:
nsl_to_station[nsl] = s # using first site with this station
logger.info("number of stations found: %i" % len(nsl_to_station))
# station weeding
nsls_selected = None
if options.nstations_wanted:
stations_all = [
nsl_to_station[nsl_] for nsl_ in sorted(nsl_to_station.keys())
]
for s in stations_all:
s.set_event_relative_data(event)
stations_selected = weeding.weed_stations(stations_all,
options.nstations_wanted)[0]
nsls_selected = set(s.nsl() for s in stations_selected)
logger.info("number of stations selected: %i" % len(nsls_selected))
have_data = set()
if options.continue_:
fns = glob.glob(fn_template_raw % starfill())
p = pile.make_pile(fns)
else:
fns = []
have_data_site = {}
could_have_data_site = {}
for site in sites:
have_data_site[site] = set()
could_have_data_site[site] = set()
available_through = defaultdict(set)
it = 0
nt = int(math.ceil((tmax - tmin) / tinc))
for it in range(nt):
tmin_win = tmin + it * tinc
tmax_win = min(tmin + (it + 1) * tinc, tmax)
logger.info("time window %i/%i (%s - %s)" %
(it + 1, nt, util.tts(tmin_win), util.tts(tmax_win)))
have_data_this_window = set()
if options.continue_:
trs_avail = p.all(tmin=tmin_win, tmax=tmax_win, load_data=False)
for tr in trs_avail:
have_data_this_window.add(tr.nslc_id)
for site, sx in zip(sites, sxs):
if sx is None:
continue
selection = []
channels = sx.choose_channels(
target_sample_rate=target_sample_rate,
priority_band_code=priority_band_code,
priority_units=priority_units,
priority_instrument_code=priority_instrument_code,
timespan=(tmin_win, tmax_win),
)
for nslc in sorted(channels.keys()):
if nsls_selected is not None and nslc[:3] not in nsls_selected:
continue
could_have_data_site[site].add(nslc)
if nslc not in have_data_this_window:
channel = channels[nslc]
if event:
lat_, lon_ = event.lat, event.lon
else:
lat_, lon_ = lat, lon
dist = orthodrome.distance_accurate50m_numpy(
lat_, lon_, channel.latitude.value,
channel.longitude.value)
if event:
depth_ = event.depth
time_ = event.time
else:
depth_ = None
time_ = None
tmin_, tmax_ = timewindow(time_, dist, depth_)
tmin_this = tmin_ - tpad
tmax_this = tmax_ + tpad
tmin_req = max(tmin_win, tmin_this)
tmax_req = min(tmax_win, tmax_this)
if channel.sample_rate:
deltat = 1.0 / channel.sample_rate.value
else:
deltat = 1.0
if tmin_req < tmax_req:
# extend time window by some samples because otherwise
# sometimes gaps are produced
selection.append(nslc + (tmin_req - deltat * 10.0,
tmax_req + deltat * 10.0))
if options.dry_run:
for (net, sta, loc, cha, tmin, tmax) in selection:
available_through[net, sta, loc, cha].add(site)
else:
neach = 100
i = 0
nbatches = ((len(selection) - 1) // neach) + 1
while i < len(selection):
selection_now = selection[i:i + neach]
f = tempfile.NamedTemporaryFile()
try:
sbatch = ""
if nbatches > 1:
sbatch = " (batch %i/%i)" % (
(i // neach) + 1, nbatches)
logger.info("downloading data (%s)%s" % (site, sbatch))
data = fdsn.dataselect(site=site,
selection=selection_now,
**get_user_credentials(site))
while True:
buf = data.read(1024)
if not buf:
break
f.write(buf)
f.flush()
trs = io.load(f.name)
for tr in trs:
if tr.station == "7869":
tr.station = "MOER"
tr.network = "LE"
tr.location = ""
try:
tr.chop(tmin_win, tmax_win)
have_data.add(tr.nslc_id)
have_data_site[site].add(tr.nslc_id)
except trace.NoData:
pass
fns2 = io.save(trs, fn_template_raw)
io.save(trs, fn_template_raw_folder)
for fn in fns2:
if fn in fns:
logger.warn("overwriting file %s", fn)
fns.extend(fns2)
except fdsn.EmptyResult:
pass
except HTTPError:
logger.warn("an error occurred while downloading data "
"for channels \n %s" %
"\n ".join(".".join(x[:4])
for x in selection_now))
f.close()
i += neach
if options.dry_run:
nslcs = sorted(available_through.keys())
all_channels = defaultdict(set)
all_stations = defaultdict(set)
def plural_s(x):
return "" if x == 1 else "s"
for nslc in nslcs:
sites = tuple(sorted(available_through[nslc]))
logger.info("selected: %s.%s.%s.%s from site%s %s" %
(nslc + (plural_s(len(sites)), "+".join(sites))))
all_channels[sites].add(nslc)
all_stations[sites].add(nslc[:3])
nchannels_all = 0
nstations_all = 0
for sites in sorted(all_channels.keys(),
key=lambda sites: (-len(sites), sites)):
nchannels = len(all_channels[sites])
nstations = len(all_stations[sites])
nchannels_all += nchannels
nstations_all += nstations
logger.info("selected (%s): %i channel%s (%i station%s)" % (
"+".join(sites),
nchannels,
plural_s(nchannels),
nstations,
plural_s(nstations),
))
logger.info("selected total: %i channel%s (%i station%s)" % (
nchannels_all,
plural_s(nchannels_all),
nstations_all,
plural_s(nstations_all),
))
logger.info("dry run done.")
sys.exit(0)
for nslc in have_data:
# if we are in continue mode, we have to guess where the data came from
if not any(nslc in have_data_site[site] for site in sites):
for site in sites:
if nslc in could_have_data_site[site]:
have_data_site[site].add(nslc)
sxs = {}
for site in sites:
selection = []
for nslc in sorted(have_data_site[site]):
selection.append(nslc + (tmin - tpad, tmax + tpad))
if selection:
logger.info("downloading response information (%s)" % site)
sxs[site] = fdsn.station(site=site,
level="response",
selection=selection)
sited = site
if site == "http://192.168.11.220:8080":
sited = "bgr_internal"
elif site == "http://ws.gpi.kit.edu":
sited = "kit"
if site == "http://188.246.25.142:8080":
sited = "moer"
sxs[site].dump_xml(filename=op.join(output_dir, "stations.%s.xml" %
sited))
# chapter 1.5: inject local data
if options.local_data:
have_data_site["local"] = set()
plocal = pile.make_pile(options.local_data, fileformat="detect")
for traces in plocal.chopper_grouped(gather=lambda tr: tr.nslc_id,
tmin=tmin,
tmax=tmax,
tinc=tinc):
for tr in traces:
if tr.station == "7869":
tr.station = "MOER"
tr.network = "LE"
tr.location = ""
if tr.nslc_id not in have_data:
fns.extend(io.save(traces, fn_template_raw))
have_data_site["local"].add(tr.nslc_id)
have_data.add(tr.nslc_id)
sites.append("local")
if options.local_responses_pz:
sxs["local"] = epz.make_stationxml(
epz.iload(options.local_responses_pz))
if options.local_responses_resp:
local_stations = []
for fn in options.local_stations:
local_stations.extend(model.load_stations(fn))
sxs["local"] = resp.make_stationxml(
local_stations, resp.iload(options.local_responses_resp))
if options.local_responses_stationxml:
sxs["local"] = stationxml.load_xml(
filename=options.local_responses_stationxml)
# chapter 1.6: dump raw data stations file
nsl_to_station = {}
for site in sites:
if site in sxs:
stations = sxs[site].get_pyrocko_stations(timespan=(tmin, tmax))
for s in stations:
nsl = s.nsl()
if nsl not in nsl_to_station:
nsl_to_station[nsl] = s
stations = [nsl_to_station[nsl_] for nsl_ in sorted(nsl_to_station.keys())]
util.ensuredirs(fn_stations_raw)
model.dump_stations(stations, fn_stations_raw)
dump_commandline(sys.argv, fn_commandline)
# chapter 2: restitution
if not fns:
logger.error("no data available")
sys.exit(1)
p = pile.make_pile(fns, show_progress=False)
p.get_deltatmin()
otinc = None
if otinc is None:
otinc = nice_seconds_floor(p.get_deltatmin() * 500000.0)
otinc = 3600.0
otmin = math.floor(p.tmin / otinc) * otinc
otmax = math.ceil(p.tmax / otinc) * otinc
otpad = tpad * 2
fns = []
rest_traces_b = []
win_b = None
for traces_a in p.chopper_grouped(gather=lambda tr: tr.nslc_id,
tmin=otmin,
tmax=otmax,
tinc=otinc,
tpad=otpad):
rest_traces_a = []
win_a = None
for tr in traces_a:
if tr.station == "7869":
tr.station = "MOER"
tr.network = "LE"
tr.location = ""
win_a = tr.wmin, tr.wmax
if win_b and win_b[0] >= win_a[0]:
fns.extend(cut_n_dump(rest_traces_b, win_b, fn_template_rest))
rest_traces_b = []
win_b = None
response = None
failure = []
for site in sites:
try:
if site not in sxs:
continue
response = sxs[site].get_pyrocko_response(
tr.nslc_id,
timespan=(tr.tmin, tr.tmax),
fake_input_units=output_units,
)
break
except stationxml.NoResponseInformation:
failure.append("%s: no response information" % site)
except stationxml.MultipleResponseInformation:
failure.append("%s: multiple response information" % site)
if response is None:
failure = ", ".join(failure)
else:
failure = ""
try:
rest_tr = tr.transfer(tfade, ftap, response, invert=True)
rest_traces_a.append(rest_tr)
except (trace.TraceTooShort, trace.NoData):
failure = "trace too short"
if failure:
logger.warn("failed to restitute trace %s.%s.%s.%s (%s)" %
(tr.nslc_id + (failure, )))
if rest_traces_b:
rest_traces = trace.degapper(rest_traces_b + rest_traces_a,
deoverlap="crossfade_cos")
fns.extend(cut_n_dump(rest_traces, win_b, fn_template_rest))
rest_traces_a = []
if win_a:
for tr in rest_traces:
if tr.station == "7869":
tr.station = "MOER"
tr.network = "LE"
tr.location = ""
try:
rest_traces_a.append(
tr.chop(win_a[0], win_a[1] + otpad, inplace=False))
except trace.NoData:
pass
rest_traces_b = rest_traces_a
win_b = win_a
fns.extend(cut_n_dump(rest_traces_b, win_b, fn_template_rest))
# chapter 3: rotated restituted traces for inspection
if not event:
sys.exit(0)
fn_template1 = "DISPL.%(network)s.%(station)s.%(location)s.%(channel)s"
fn_waveforms = op.join(output_dir, "prepared", fn_template1)
fn_stations = op.join(output_dir, "stations.prepared.txt")
fn_event = op.join(event_dir, "event.txt")
nsl_to_station = {}
for site in sites:
if site in sxs:
stations = sxs[site].get_pyrocko_stations(timespan=(tmin, tmax))
for s in stations:
nsl = s.nsl()
if nsl not in nsl_to_station:
nsl_to_station[nsl] = s
p = pile.make_pile(fns, show_progress=False)
deltat = None
if sample_rate is not None:
deltat = 1.0 / sample_rate
used_stations = []
for nsl, s in nsl_to_station.items():
s.set_event_relative_data(event)
traces = p.all(trace_selector=lambda tr: tr.nslc_id[:3] == nsl)
keep = []
for tr in traces:
if deltat is not None:
try:
tr.downsample_to(deltat, snap=True, allow_upsample_max=5)
keep.append(tr)
except util.UnavailableDecimation as e:
logger.warn("Cannot downsample %s.%s.%s.%s: %s" %
(tr.nslc_id + (e, )))
continue
if options.out_components == "rtu":
pios = s.guess_projections_to_rtu(out_channels=("R", "T", "Z"))
elif options.out_components == "enu":
pios = s.guess_projections_to_enu(out_channels=("E", "N", "Z"))
else:
assert False
for (proj, in_channels, out_channels) in pios:
proc = trace.project(traces, proj, in_channels, out_channels)
for tr in proc:
for ch in out_channels:
if ch.name == tr.channel:
s.add_channel(ch)
if proc:
io.save(proc, fn_waveforms)
used_stations.append(s)
stations = list(used_stations)
util.ensuredirs(fn_stations)
model.dump_stations(stations, fn_stations)
model.dump_events([event], fn_event)
logger.info("prepared waveforms from %i stations" % len(stations))
def write_config(conf, config_name='config'):
conf_path = expand(make_conf_path_tmpl(config_name))
util.ensuredirs(conf_path)
dump(conf, filename=conf_path)
def get_ttt(ct, coords, depth_opt):
x_bounds = num.array(
[
[ct.r_depth_min, ct.r_depth_max],
#[ct.s_depth_min, ct.s_depth_max],
[depth_opt[0], depth_opt[1]],
[ct.dist_min, ct.dist_max]
],
dtype=num.float)
# spatial tolerance for interpolating/ accuracy
x_tolerance = num.array((ct.r_acc, ct.s_acc, ct.dist_acc))
# temporal tolerance for interpolating/ accurancy
t_tolerance = ct.t_acc # s?
earthmodel = CakeEarthmodel(id=ct.earthmodel_id,
earthmodel_1d=cake.load_model(
cake.builtin_model_filename(
ct.earthmodel_id)))
interpolated_tts = {}
for phase_def in ct.tabulated_phases:
ttt_hash_ = ttt_hash(ct, earthmodel, phase_def.phases, x_bounds,
x_tolerance, t_tolerance)
fpath = ttt_path(ct, ttt_hash_)
# make ttt for current phase, bounds, tolerance settings
# or read if already existing!
if not op.exists(fpath):
def evaluate(args):
receiver_depth, source_depth, x = args
t = []
rays = earthmodel.earthmodel_1d.arrivals(
phases=phase_def.phases,
distances=[x * cake.m2d],
zstart=source_depth,
zstop=receiver_depth)
for ray in rays:
t.append(ray.t)
if t:
return min(t)
else:
return None
sptree = spit.SPTree(f=evaluate,
ftol=t_tolerance,
xbounds=x_bounds,
xtols=x_tolerance)
util.ensuredirs(fpath)
sptree.dump(filename=fpath)
else:
sptree = spit.SPTree(filename=fpath)
interpolated_tts["stored:" + str(phase_def.id)] = sptree
intp_times = sptree.interpolate_many(coords)
return intp_times
def dump_problem_info(self, dirname):
fn = op.join(dirname, 'problem.yaml')
util.ensuredirs(fn)
guts.dump(self, filename=fn)
def save(traces, filename_template, format='mseed', additional={},
stations=None, overwrite=True):
'''Save traces to file(s).
:param traces: a trace or an iterable of traces to store
:param filename_template: filename template with placeholders for trace
metadata. Uses normal python '%%(placeholder)s' string templates.
The following placeholders are considered: ``network``,
``station``, ``location``, ``channel``, ``tmin``
(time of first sample), ``tmax`` (time of last sample),
``tmin_ms``, ``tmax_ms``, ``tmin_us``, ``tmax_us``. The versions
with '_ms' include milliseconds, the versions with '_us' include
microseconds.
:param format: %s
:param additional: dict with custom template placeholder fillins.
:param overwrite': if ``False``, raise an exception if file exists
:returns: list of generated filenames
.. note::
Network, station, location, and channel codes may be silently truncated
to file format specific maximum lengthes.
'''
if isinstance(traces, trace.Trace):
traces = [ traces ]
if format == 'from_extension':
format = os.path.splitext(filename_template)[1][1:]
if format == 'mseed':
return mseed.save(traces, filename_template, additional,
overwrite=overwrite)
elif format == 'gse2':
return gse2_io_wrap.save(traces, filename_template, additional,
overwrite=overwrite)
elif format == 'sac':
fns = []
for tr in traces:
fn = tr.fill_template(filename_template, **additional)
if not overwrite and os.path.exists(fn):
raise FileSaveError('file exists: %s' % fn)
util.ensuredirs(fn)
f = sac.SacFile(from_trace=tr)
if stations:
s = stations[tr.network, tr.station, tr.location]
f.stla = s.lat
f.stlo = s.lon
f.stel = s.elevation
f.stdp = s.depth
f.cmpinc = s.get_channel(tr.channel).dip + 90.
f.cmpaz = s.get_channel(tr.channel).azimuth
f.write(fn)
fns.append(fn)
return fns
elif format == 'text':
fns = []
for tr in traces:
fn = tr.fill_template(filename_template, **additional)
if not overwrite and os.path.exists(fn):
raise FileSaveError('file exists: %s' % fn)
util.ensuredirs(fn)
x,y = tr.get_xdata(), tr.get_ydata()
num.savetxt(fn, num.transpose((x,y)))
fns.append(fn)
return fns
elif format == 'yaff':
return yaff.save(traces, filename_template, additional,
overwrite=overwrite)
else:
raise UnsupportedFormat(format)
def put_test_data(path, dest=None):
if dest is None:
dest = path
fn = get_test_data(path)
util.ensuredirs(dest)
shutil.copytree(fn, dest)
def make_ttt(self, force=False):
'''Compute travel time tables.
Travel time tables are computed using the 1D earth model defined in
:py:attr:`pyrocko.gf.meta.Config.earthmodel_1d` for each defined phase
in :py:attr:`pyrocko.gf.meta.Config.tabulated_phases`. The accuracy of
the tablulated times is adjusted to the sampling rate of the store.
'''
from pyrocko import cake
config = self.config
if not config.tabulated_phases:
return
mod = config.earthmodel_1d
if not mod:
raise StoreError('no earth model found')
for pdef in config.tabulated_phases:
phase_id = pdef.id
phases = pdef.phases
horvels = pdef.horizontal_velocities
fn = os.path.join(self.store_dir, 'phases', '%s.phase' % phase_id)
if os.path.exists(fn) and not force:
logger.info('file already exists: %s' % fn)
continue
def evaluate(args):
if len(args) == 2:
zr, zs, x = (config.receiver_depth,) + args
elif len(args) == 3:
zr, zs, x = args
else:
assert False
t = []
if phases:
rays = mod.arrivals(
phases=phases,
distances=[x*cake.m2d],
zstart=zs,
zstop=zr)
for ray in rays:
t.append(ray.t)
for v in horvels:
t.append(x/(v*1000.))
if t:
return min(t)
else:
return None
logger.info('making travel time table for phasegroup "%s"' %
phase_id)
ip = spit.SPTree(
f=evaluate,
ftol=config.deltat*0.5,
xbounds=num.transpose((config.mins, config.maxs)),
xtols=config.deltas)
util.ensuredirs(fn)
ip.dump(fn)
def dump_collection(self):
path = self.path_collection()
util.ensuredirs(path)
guts.dump(self._collection, filename=path)
def write_config(conf):
conf_path = expand(conf_path_tmpl)
util.ensuredirs(conf_path)
dump(conf, filename=conf_path)
