602 lines
16 KiB
Python
602 lines
16 KiB
Python
#!/usr/bin/env python
|
|
# -*- coding: utf-8 -*-
|
|
|
|
import copy
|
|
import os
|
|
from obspy import read_events
|
|
from obspy.core import read, Stream, UTCDateTime
|
|
from obspy.core.event import Event
|
|
|
|
from pylot.core.io.phases import readPILOTEvent, picks_from_picksdict, \
|
|
picksdict_from_pilot, merge_picks
|
|
from pylot.core.util.errors import FormatError, OverwriteError
|
|
from pylot.core.util.utils import fnConstructor, getGlobalTimes
|
|
|
|
|
|
class Data(object):
|
|
"""
|
|
Data container with attributes wfdata holding ~obspy.core.stream.
|
|
|
|
:type parent: PySide.QtGui.QWidget object, optional
|
|
:param parent: A PySide.QtGui.QWidget object utilized when
|
|
called by a GUI to display a PySide.QtGui.QMessageBox instead of printing
|
|
to standard out.
|
|
:type evtdata: ~obspy.core.event.Event object, optional
|
|
:param evtdata ~obspy.core.event.Event object containing all derived or
|
|
loaded event. Container object holding, e.g. phase arrivals, etc.
|
|
"""
|
|
|
|
def __init__(self, parent=None, evtdata=None):
|
|
self._parent = parent
|
|
if self.getParent():
|
|
self.comp = parent.getComponent()
|
|
else:
|
|
self.comp = 'Z'
|
|
self.wfdata = Stream()
|
|
self._new = False
|
|
if isinstance(evtdata, Event):
|
|
pass
|
|
elif isinstance(evtdata, dict):
|
|
evt = readPILOTEvent(**evtdata)
|
|
evtdata = evt
|
|
elif isinstance(evtdata, basestring):
|
|
try:
|
|
cat = read_events(evtdata)
|
|
if len(cat) is not 1:
|
|
raise ValueError('ambiguous event information for file: '
|
|
'{file}'.format(file=evtdata))
|
|
evtdata = cat[0]
|
|
except TypeError as e:
|
|
if 'Unknown format for file' in e.message:
|
|
if 'PHASES' in evtdata:
|
|
picks = picksdict_from_pilot(evtdata)
|
|
evtdata = Event()
|
|
evtdata.picks = picks_from_picksdict(picks)
|
|
elif 'LOC' in evtdata:
|
|
raise NotImplementedError('PILOT location information '
|
|
'read support not yet '
|
|
'implemeted.')
|
|
else:
|
|
raise e
|
|
else:
|
|
raise e
|
|
else: # create an empty Event object
|
|
self.setNew()
|
|
evtdata = Event()
|
|
evtdata.picks = []
|
|
self.evtdata = evtdata
|
|
self.wforiginal = None
|
|
self.cuttimes = None
|
|
self.dirty = False
|
|
|
|
def __str__(self):
|
|
return str(self.wfdata)
|
|
|
|
def __add__(self, other):
|
|
assert isinstance(other, Data), "operands must be of same type 'Data'"
|
|
if other.isNew() and not self.isNew():
|
|
picks_to_add = other.get_evt_data().picks
|
|
old_picks = self.get_evt_data().picks
|
|
for pick in picks_to_add:
|
|
if pick not in old_picks:
|
|
old_picks.append(pick)
|
|
elif not other.isNew() and self.isNew():
|
|
new = other + self
|
|
self.evtdata = new.get_evt_data()
|
|
elif self.isNew() and other.isNew():
|
|
pass
|
|
elif self.get_evt_data().get('id') == other.get_evt_data().get('id'):
|
|
other.setNew()
|
|
return self + other
|
|
else:
|
|
raise ValueError("both Data objects have differing "
|
|
"unique Event identifiers")
|
|
return self
|
|
|
|
def getPicksStr(self):
|
|
picks_str = ''
|
|
for pick in self.get_evt_data().picks:
|
|
picks_str += str(pick) + '\n'
|
|
return picks_str
|
|
|
|
def getParent(self):
|
|
"""
|
|
|
|
|
|
:return:
|
|
"""
|
|
return self._parent
|
|
|
|
def isNew(self):
|
|
"""
|
|
|
|
|
|
:return:
|
|
"""
|
|
return self._new
|
|
|
|
def setNew(self):
|
|
self._new = True
|
|
|
|
def getCutTimes(self):
|
|
"""
|
|
|
|
|
|
:return:
|
|
"""
|
|
if self.cuttimes is None:
|
|
self.updateCutTimes()
|
|
return self.cuttimes
|
|
|
|
def updateCutTimes(self):
|
|
"""
|
|
|
|
|
|
"""
|
|
self.cuttimes = getGlobalTimes(self.getWFData())
|
|
|
|
def getEventFileName(self):
|
|
"""
|
|
|
|
|
|
:return:
|
|
"""
|
|
ID = self.getID()
|
|
# handle forbidden filenames especially on windows systems
|
|
return fnConstructor(str(ID))
|
|
|
|
def exportEvent(self, fnout, fnext='.xml'):
|
|
|
|
"""
|
|
|
|
:param fnout:
|
|
:param fnext:
|
|
:raise KeyError:
|
|
"""
|
|
from pylot.core.util.defaults import OUTPUTFORMATS
|
|
|
|
try:
|
|
evtformat = OUTPUTFORMATS[fnext]
|
|
except KeyError as e:
|
|
errmsg = '{0}; selected file extension {1} not ' \
|
|
'supported'.format(e, fnext)
|
|
raise FormatError(errmsg)
|
|
|
|
# try exporting event via ObsPy
|
|
try:
|
|
self.get_evt_data().write(fnout + fnext, format=evtformat)
|
|
except KeyError as e:
|
|
raise KeyError('''{0} export format
|
|
not implemented: {1}'''.format(evtformat, e))
|
|
|
|
def getComp(self):
|
|
"""
|
|
|
|
|
|
:return:
|
|
"""
|
|
return self.comp
|
|
|
|
def getID(self):
|
|
"""
|
|
|
|
|
|
:return:
|
|
"""
|
|
try:
|
|
return self.evtdata.get('resource_id').id
|
|
except:
|
|
return None
|
|
|
|
def filterWFData(self, kwargs):
|
|
"""
|
|
|
|
:param kwargs:
|
|
"""
|
|
self.getWFData().filter(**kwargs)
|
|
self.dirty = True
|
|
|
|
def setWFData(self, fnames):
|
|
"""
|
|
|
|
:param fnames:
|
|
"""
|
|
self.wfdata = Stream()
|
|
self.wforiginal = None
|
|
if fnames is not None:
|
|
self.appendWFData(fnames)
|
|
else:
|
|
return False
|
|
self.wforiginal = self.getWFData().copy()
|
|
self.dirty = False
|
|
return True
|
|
|
|
def appendWFData(self, fnames):
|
|
"""
|
|
|
|
:param fnames:
|
|
"""
|
|
assert isinstance(fnames, list), "input parameter 'fnames' is " \
|
|
"supposed to be of type 'list' " \
|
|
"but is actually" \
|
|
" {0}".format(type(fnames))
|
|
if self.dirty:
|
|
self.resetWFData()
|
|
|
|
warnmsg = ''
|
|
for fname in fnames:
|
|
try:
|
|
self.wfdata += read(fname)
|
|
except TypeError:
|
|
try:
|
|
self.wfdata += read(fname, format='GSE2')
|
|
except Exception as e:
|
|
warnmsg += '{0}\n{1}\n'.format(fname, e)
|
|
if warnmsg:
|
|
warnmsg = 'WARNING: unable to read\n' + warnmsg
|
|
print(warnmsg)
|
|
|
|
def getWFData(self):
|
|
"""
|
|
|
|
|
|
:return:
|
|
"""
|
|
return self.wfdata
|
|
|
|
def getOriginalWFData(self):
|
|
"""
|
|
|
|
|
|
:return:
|
|
"""
|
|
return self.wforiginal
|
|
|
|
def resetWFData(self):
|
|
"""
|
|
|
|
|
|
"""
|
|
self.wfdata = self.getOriginalWFData().copy()
|
|
self.dirty = False
|
|
|
|
def resetPicks(self):
|
|
"""
|
|
|
|
|
|
"""
|
|
self.get_evt_data().picks = []
|
|
|
|
def get_evt_data(self):
|
|
"""
|
|
|
|
|
|
:return:
|
|
"""
|
|
return self.evtdata
|
|
|
|
def setEvtData(self, event):
|
|
self.evtdata = event
|
|
|
|
def applyEVTData(self, data, type='pick', authority_id='rub'):
|
|
|
|
"""
|
|
|
|
:param data:
|
|
:param type:
|
|
:param authority_id:
|
|
:raise OverwriteError:
|
|
"""
|
|
|
|
def applyPicks(picks):
|
|
"""
|
|
Creates ObsPy pick objects and append it to the picks list from the
|
|
PyLoT dictionary contain all picks.
|
|
:param picks:
|
|
:raise OverwriteError: raises an OverwriteError if the picks list is
|
|
not empty. The GUI will then ask for a decision.
|
|
"""
|
|
|
|
#firstonset = find_firstonset(picks)
|
|
if self.get_evt_data().picks:
|
|
raise OverwriteError('Actual picks would be overwritten!')
|
|
else:
|
|
picks = picks_from_picksdict(picks)
|
|
self.get_evt_data().picks = picks
|
|
# if 'smi:local' in self.getID() and firstonset:
|
|
# fonset_str = firstonset.strftime('%Y_%m_%d_%H_%M_%S')
|
|
# ID = ResourceIdentifier('event/' + fonset_str)
|
|
# ID.convertIDToQuakeMLURI(authority_id=authority_id)
|
|
# self.get_evt_data().resource_id = ID
|
|
|
|
|
|
def applyEvent(event):
|
|
"""
|
|
takes an `obspy.core.event.Event` object and applies all new
|
|
information on the event to the actual data
|
|
:param event:
|
|
"""
|
|
if not self.isNew():
|
|
self.setEvtData(event)
|
|
else:
|
|
# prevent overwriting original pick information
|
|
picks = copy.deepcopy(self.get_evt_data().picks)
|
|
event = merge_picks(event, picks)
|
|
# apply event information from location
|
|
self.get_evt_data().update(event)
|
|
|
|
applydata = {'pick': applyPicks,
|
|
'event': applyEvent}
|
|
|
|
applydata[type](data)
|
|
|
|
|
|
class GenericDataStructure(object):
|
|
"""
|
|
GenericDataBase type holds all information about the current data-
|
|
base working on.
|
|
"""
|
|
|
|
def __init__(self, **kwargs):
|
|
|
|
self.allowedFields = []
|
|
self.expandFields = ['root']
|
|
self.dsFields = {}
|
|
|
|
self.modifyFields(**kwargs)
|
|
|
|
def modifyFields(self, **kwargs):
|
|
|
|
"""
|
|
|
|
:param kwargs:
|
|
"""
|
|
assert isinstance(kwargs, dict), 'dictionary type object expected'
|
|
|
|
if not self.extraAllowed():
|
|
kwargs = self.updateNotAllowed(kwargs)
|
|
|
|
for key, value in kwargs.items():
|
|
key = str(key).lower()
|
|
if value is not None:
|
|
if type(value) not in (str, int, float):
|
|
for n, val in enumerate(value):
|
|
value[n] = str(val)
|
|
else:
|
|
value = str(value)
|
|
try:
|
|
self.setFieldValue(key, value)
|
|
except KeyError as e:
|
|
errmsg = ''
|
|
errmsg += 'WARNING:\n'
|
|
errmsg += 'unable to set values for datastructure fields\n'
|
|
errmsg += '%s; desired value was: %s\n' % (e, value)
|
|
print(errmsg)
|
|
|
|
def isField(self, key):
|
|
"""
|
|
|
|
:param key:
|
|
:return:
|
|
"""
|
|
return key in self.getFields().keys()
|
|
|
|
def getFieldValue(self, key):
|
|
"""
|
|
|
|
:param key:
|
|
:return:
|
|
"""
|
|
if self.isField(key):
|
|
return self.getFields()[key]
|
|
else:
|
|
return
|
|
|
|
def setFieldValue(self, key, value):
|
|
"""
|
|
|
|
:param key:
|
|
:param value:
|
|
:raise KeyError:
|
|
"""
|
|
if not self.extraAllowed() and key not in self.getAllowed():
|
|
raise KeyError
|
|
else:
|
|
if not self.isField(key):
|
|
print('creating new field "%s"' % key)
|
|
self.getFields()[key] = value
|
|
|
|
def getFields(self):
|
|
"""
|
|
|
|
|
|
:return:
|
|
"""
|
|
return self.dsFields
|
|
|
|
def getExpandFields(self):
|
|
"""
|
|
|
|
|
|
:return:
|
|
"""
|
|
return self.expandFields
|
|
|
|
def setExpandFields(self, keys):
|
|
"""
|
|
|
|
:param keys:
|
|
"""
|
|
expandFields = []
|
|
for key in keys:
|
|
if self.isField(key):
|
|
expandFields.append(key)
|
|
self.expandFields = expandFields
|
|
|
|
def getAllowed(self):
|
|
"""
|
|
|
|
|
|
:return:
|
|
"""
|
|
return self.allowedFields
|
|
|
|
def extraAllowed(self):
|
|
"""
|
|
|
|
|
|
:return:
|
|
"""
|
|
return not self.allowedFields
|
|
|
|
def updateNotAllowed(self, kwargs):
|
|
"""
|
|
|
|
:param kwargs:
|
|
:return:
|
|
"""
|
|
for key in kwargs:
|
|
if key not in self.getAllowed():
|
|
kwargs.__delitem__(key)
|
|
return kwargs
|
|
|
|
def hasSuffix(self):
|
|
"""
|
|
|
|
|
|
:return:
|
|
"""
|
|
try:
|
|
self.getFieldValue('suffix')
|
|
except KeyError:
|
|
return False
|
|
else:
|
|
if self.getFieldValue('suffix'):
|
|
return True
|
|
return False
|
|
|
|
def expandDataPath(self):
|
|
"""
|
|
|
|
|
|
:return:
|
|
"""
|
|
expandList = []
|
|
for item in self.getExpandFields():
|
|
expandList.append(self.getFieldValue(item))
|
|
if self.hasSuffix():
|
|
expandList.append('*%s' % self.getFieldValue('suffix'))
|
|
return os.path.join(*expandList)
|
|
|
|
def getCatalogName(self):
|
|
"""
|
|
|
|
|
|
:return:
|
|
"""
|
|
return os.path.join(self.getFieldValue('root'), 'catalog.qml')
|
|
|
|
|
|
class PilotDataStructure(GenericDataStructure):
|
|
"""
|
|
Object containing the data access information for the old PILOT data
|
|
structure.
|
|
"""
|
|
|
|
def __init__(self, **fields):
|
|
if not fields:
|
|
fields = {'database': '2006.01',
|
|
'root': '/data/Egelados/EVENT_DATA/LOCAL'}
|
|
|
|
GenericDataStructure.__init__(self, **fields)
|
|
|
|
self.setExpandFields(['root', 'database'])
|
|
|
|
|
|
class SeiscompDataStructure(GenericDataStructure):
|
|
"""
|
|
Dictionary containing the data access information for an SDS data archive:
|
|
|
|
:param str dataType: Desired data type. Default: ``'waveform'``
|
|
:param sdate, edate: Either date string or an instance of
|
|
:class:`obspy.core.utcdatetime.UTCDateTime. Default: ``None``
|
|
:type sdate, edate: str or UTCDateTime or None
|
|
"""
|
|
|
|
def __init__(self, rootpath='/data/SDS', dataformat='MSEED',
|
|
filesuffix=None, **kwargs):
|
|
super(GenericDataStructure, self).__init__()
|
|
|
|
edate = UTCDateTime()
|
|
halfyear = UTCDateTime('1970-07-01')
|
|
sdate = UTCDateTime(edate - halfyear)
|
|
del halfyear
|
|
|
|
year = ''
|
|
if not edate.year == sdate.year:
|
|
nyears = edate.year - sdate.year
|
|
for yr in range(nyears):
|
|
year += '{0:04d},'.format(sdate.year + yr)
|
|
year = '{' + year[:-1] + '}'
|
|
else:
|
|
year = '{0:04d}'.format(sdate.year)
|
|
|
|
# SDS fields' default values
|
|
# definitions from
|
|
# http://www.seiscomp3.org/wiki/doc/applications/slarchive/SDS
|
|
|
|
self.dsFields = {'root': '/data/SDS', 'YEAR': year, 'NET': '??',
|
|
'STA': '????', 'CHAN': 'HH?', 'TYPE': 'D', 'LOC': '',
|
|
'DAY': '{0:03d}'.format(sdate.julday)
|
|
}
|
|
self.modifiyFields(**kwargs)
|
|
|
|
def modifiyFields(self, **kwargs):
|
|
"""
|
|
|
|
:param kwargs:
|
|
"""
|
|
if kwargs and isinstance(kwargs, dict):
|
|
for key, value in kwargs.iteritems():
|
|
key = str(key)
|
|
if type(value) not in (str, int, float):
|
|
for n, val in enumerate(value):
|
|
value[n] = str(val)
|
|
else:
|
|
value = str(value)
|
|
try:
|
|
self.setFieldValue(key, value)
|
|
except KeyError as e:
|
|
errmsg = ''
|
|
errmsg += 'WARNING:\n'
|
|
errmsg += 'unable to set values for SDS fields\n'
|
|
errmsg += '%s; desired value was: %s\n' % (e, value)
|
|
print(errmsg)
|
|
|
|
def setFieldValue(self, key, value):
|
|
"""
|
|
|
|
:param key:
|
|
:param value:
|
|
"""
|
|
if self.isField(key):
|
|
self.getFields()[key] = value
|
|
else:
|
|
print('Warning: trying to set value of non-existent field '
|
|
'{field}'.format(field=key))
|
|
|
|
def expandDataPath(self):
|
|
"""
|
|
|
|
|
|
:return:
|
|
"""
|
|
fullChan = '{0}.{1}'.format(self.getFields()['CHAN'], self.getType())
|
|
dataPath = os.path.join(self.getFields()['SDSdir'],
|
|
self.getFields()['YEAR'],
|
|
self.getFields()['NET'],
|
|
self.getFields()['STA'],
|
|
fullChan,
|
|
'*{0}'.format(self.getFields()['DAY']))
|
|
return dataPath
|