[add] check for gaps and trim traces for one station

[change] restitute data only if necessary!

QtPyLoT.py

@@ -73,7 +73,7 @@ from pylot.core.util.errors import FormatError, DatastructureError, \
 from pylot.core.util.connection import checkurl
 from pylot.core.util.dataprocessing import read_metadata, restitute_data
 from pylot.core.util.utils import fnConstructor, getLogin, \
-    full_range, readFilterInformation
+    full_range, readFilterInformation, trim_station_components, check4gaps
 from pylot.core.util.event import Event
 from pylot.core.io.location import create_creation_info, create_event
 from pylot.core.util.widgets import FilterOptionsDialog, NewEventDlg, \
@@ -1365,6 +1365,10 @@ class MainWindow(QMainWindow):
         #     ans = False
         self.fnames = self.getWFFnames_from_eventbox()
         self.data.setWFData(self.fnames)
+        wfdat = self.data.getWFData()  # all available streams
+        check4gaps(wfdat)
+        # trim station components to same start value
+        trim_station_components(wfdat, trim_start=True, trim_end=False)
         self._stime = full_range(self.get_data().getWFData())[0]
 
     def connectWFplotEvents(self):

autoPyLoT.py

@@ -22,12 +22,11 @@ from pylot.core.analysis.magnitude import MomentMagnitude, LocalMagnitude
 from pylot.core.io.data import Data
 from pylot.core.io.inputs import PylotParameter
 from pylot.core.pick.autopick import autopickevent, iteratepicker
-from pylot.core.util.dataprocessing import restitute_data, read_metadata, \
-    remove_underscores
+from pylot.core.util.dataprocessing import restitute_data, read_metadata
 from pylot.core.util.defaults import SEPARATOR
 from pylot.core.util.event import Event
 from pylot.core.util.structure import DATASTRUCTURE
-from pylot.core.util.utils import real_None
+from pylot.core.util.utils import real_None, remove_underscores, trim_station_components, check4gaps
 from pylot.core.util.version import get_git_version as _getVersionString
 
 __version__ = _getVersionString()
@@ -239,7 +238,12 @@ def autoPyLoT(input_dict=None, parameter=None, inputfile=None, fnames=None, even
                     print('Could not find station {}. STOP!'.format(station))
                     return
             wfdat = remove_underscores(wfdat)
+            # trim components for each station to avoid problems with different trace starttimes for one station
+            wfdat = check4gaps(wfdat)
+            wfdat = trim_station_components(wfdat, trim_start=True, trim_end=False)
             metadata = read_metadata(parameter.get('invdir'))
+            corr_dat = None
+            if locflag:
                 print("Restitute data ...")
                 corr_dat = restitute_data(wfdat.copy(), *metadata, ncores=ncores)
             if not corr_dat and locflag:

pylot/core/pick/autopick.py

@@ -197,6 +197,7 @@ def autopickstation(wfstream, pickparam, verbose=False,
     if len(ndat) == 0:  # check for other components
         ndat = wfstream.select(component="1")
 
+
     wfstart, wfend = full_range(wfstream)
 
     if algoP == 'HOS' or algoP == 'ARZ' and zdat is not None:

pylot/core/util/utils.py

@@ -470,6 +470,61 @@ def remove_underscores(data):
     return data
 
 
+def trim_station_components(data, trim_start=True, trim_end=True):
+    '''
+    cut a stream so only the part common to all three traces is kept to avoid dealing with offsets
+    :param data: stream of seismic data
+    :type data: `obspy.core.stream.Stream`
+    :param trim_start: trim start of stream
+    :type trim_start: bool
+    :param trim_end: trim end of stream
+    :type trim_end: bool
+    :return: data stream
+    '''
+    starttime = {False: None}
+    endtime = {False: None}
+
+    stations = get_stations(data)
+
+    print('trim_station_components: Will trim stream for trim_start: {} and for '
+          'trim_end: {}.'.format(trim_start, trim_end))
+    for station in stations:
+        wf_station = data.select(station=station)
+        starttime[True] = max([trace.stats.starttime for trace in wf_station])
+        endtime[True] = min([trace.stats.endtime for trace in wf_station])
+        wf_station.trim(starttime=starttime[trim_start], endtime=endtime[trim_end])
+
+    return data
+
+
+def check4gaps(data):
+    '''
+    check for gaps in Stream and remove them
+    :param data: stream of seismic data
+    :return: data stream
+    '''
+    stations = get_stations(data)
+
+    for station in stations:
+        wf_station = data.select(station=station)
+        if wf_station.get_gaps():
+            for trace in wf_station:
+                data.remove(trace)
+            print('check4gaps: Found gaps and removed station {} from waveform data.'.format(station))
+
+    return data
+
+
+def get_stations(data):
+    stations = []
+    for tr in data:
+        station = tr.stats.station
+        if not station in stations:
+            stations.append(station)
+
+    return stations
+
+
 def scaleWFData(data, factor=None, components='all'):
     """
     produce scaled waveforms from given waveform data and a scaling factor,