added new files to pylot active
This commit is contained in:
Marcel Paffrath
parent
2308695fa8
commit
03eac54ced
218
pylot/core/active/activeSeismoPick.py
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218
pylot/core/active/activeSeismoPick.py
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from pylot.core.active import seismicshot
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import numpy as np
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class Survey(object):
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def __init__(self, path, sourcefile, receiverfile, useDefaultParas = False):
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'''
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The Survey Class contains all shots [type: seismicshot] of a survey
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as well as the aquisition geometry and the topography.
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'''
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self.data = {}
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self._topography = None
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self._recfile = receiverfile
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self._sourcefile = sourcefile
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self._obsdir = path
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self._generateSurvey()
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if useDefaultParas == True:
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self.setParametersForShots()
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self._removeAllEmptyTraces()
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self._updateShots()
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def _generateSurvey(self):
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from obspy.core import read
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shot_dict = {}
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shotlist = self.getShotlist()
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for shotnumber in shotlist: # loop over data files
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# generate filenames and read manual picks to a list
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obsfile = self._obsdir + str(shotnumber) + '_pickle.dat'
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if not obsfile in shot_dict.keys():
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shot_dict[shotnumber] = []
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shot_dict[shotnumber] = seismicshot.SeismicShot(obsfile)
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shot_dict[shotnumber].setParameters('shotnumber', shotnumber)
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self.setArtificialPick(0, 0) # artificial pick at source origin
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self.data = shot_dict
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print ("Generated Survey object for %d shots" % len(shotlist))
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print ("Total number of traces: %d \n" %self.countAllTraces())
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def setParametersForShots(self, cutwindow = (0, 0.2), tmovwind = 0.3, tsignal = 0.03, tgap = 0.0007):
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if (cutwindow == (0, 0.2) and tmovwind == 0.3 and
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tsignal == 0.03 and tgap == 0.0007):
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print ("Warning: Standard values used for "
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"setParamters. This may not be clever.")
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# CHANGE this later. Parameters only needed for survey, not for each shot.
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for shot in self.data.values():
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shot.setCut(cutwindow)
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shot.setTmovwind(tmovwind)
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shot.setTsignal(tsignal)
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shot.setTgap(tgap)
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shot.setRecfile(self.getPath() + self.getReceiverfile())
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shot.setSourcefile(self.getPath() + self.getSourcefile())
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shot.setOrder(order = 4)
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print ("setParametersForShots: Parameters set to:\n"
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"cutwindow = %s, tMovingWindow = %f, tsignal = %f, tgap = %f"
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%(cutwindow, tmovwind, tsignal, tgap))
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def _removeAllEmptyTraces(self):
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filename = 'removeEmptyTraces.out'
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count = 0
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for shot in self.data.values():
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removed = shot.removeEmptyTraces()
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if removed is not None:
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if count == 0: outfile = open(filename, 'w')
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count += 1
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outfile.writelines('shot: %s, removed empty traces: %s\n'
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%(shot.getShotnumber(), removed))
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print ("\nremoveEmptyTraces: Finished! Removed %d traces" %count)
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if count > 0:
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print ("See %s for more information "
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"on removed traces."%(filename))
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outfile.close()
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def _updateShots(self):
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filename = 'updateShots.out'
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count = 0; countTraces = 0
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for shot in self.data.values():
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del_traceIDs = shot.updateTraceList()
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if len(del_traceIDs) > 0:
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if count == 0: outfile = open(filename, 'w')
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count += 1
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countTraces += len(del_traceIDs)
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outfile.writelines("shot: %s, removed traceID(s) %s because "
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"they were not found in the corresponding stream\n"
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%(shot.getShotnumber(), del_traceIDs))
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print ("\nupdateShots: Finished! Updated %d shots and removed "
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"%d traces" %(count, countTraces))
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if count > 0:
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print ("See %s for more information "
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"on removed traces."%(filename))
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outfile.close()
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def pickAllShots(self, HosAic = 'hos', vmin = 333, vmax = 5500):
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'''
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Automatically pick all traces of all shots of the survey.
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'''
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from datetime import datetime
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count = 0
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for shot in self.data.values():
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tstartpick = datetime.now(); count += 1
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for traceID in shot.getTraceIDlist():
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distance = shot.getDistance(traceID) # receive distance
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pickwin_used = shot.getCut()
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cutwindow = shot.getCut()
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# for higher distances use a linear vmin/vmax to cut out late/early regions with high noise
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if distance > 5.:
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pwleft = distance/vmax ################## TEST
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pwright = distance/vmin
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if pwright > cutwindow[1]:
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pwright = cutwindow[1]
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pickwin_used = (pwleft, pwright)
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shot.setPickwindow(traceID, pickwin_used)
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shot.pickTraces(traceID, pickmethod, windowsize, folm, HosAic) # picker
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# ++ TEST: set and check SNR before adding to distance bin ############################
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shot.setSNR(traceID)
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#if shot.getSNR(traceID)[0] < snrthreshold:
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if shot.getSNR(traceID)[0] < shot.getSNRthreshold(traceID):
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shot.removePick(traceID)
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# -- TEST: set and check SNR before adding to distance bin ############################
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if shot.getPick(traceID) is not None:
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shot.setEarllatepick(traceID)
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tpicksum += (datetime.now() - tstartpick); tpick = tpicksum/count
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tremain = (tpick * (len(survey.getShotDict()) - count))
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tend = datetime.now() + tremain
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print 'shot: %s, est. time to be finished is %s:%s:%s' % (shot.getShotname(), tend.hour, tend.minute, tend.second)
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def setArtificialPick(self, traceID, pick):
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for shot in self.data.values():
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shot.setPick(traceID, pick)
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shot.setPickwindow(traceID, shot.getCut())
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def countAllTraces(self):
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numtraces = 0
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for line in self.getShotlist():
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for line in self.getReceiverlist():
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numtraces += 1
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return numtraces
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def getShotlist(self):
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filename = self.getPath() + self.getSourcefile()
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srcfile = open(filename,'r')
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shotlist = []
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for line in srcfile.readlines():
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line = line.split()
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shotlist.append(int(line[0]))
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return shotlist
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def getReceiverlist(self):
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filename = self.getPath() + self.getReceiverfile()
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recfile = open(filename,'r')
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reclist = []
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for line in recfile.readlines():
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line = line.split()
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reclist.append(int(line[0]))
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return reclist
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def getShotDict(self):
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return self.data
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def getShot(self, shotnumber):
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return self.data[shotnumber]
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def getSourcefile(self):
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return self._sourcefile
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def getReceiverfile(self):
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return self._recfile
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def getPath(self):
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return self._obsdir
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def getStats(self):
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info_dict = {}
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for shot in self.data.values():
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pickedTraces = 0
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snrlist = []
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dist = []
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numtraces = len(shot.getTraceIDlist())
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for traceID in shot.getTraceIDlist():
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snrlist.append(shot.getSNR(traceID)[0])
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dist.append(shot.getDistance(traceID))
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if shot.getPick(traceID) is not None:
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pickedTraces += 1
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info_dict[shot.getShotnumber()] = {'numtraces': numtraces,
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'picked traces': [pickedTraces,
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'%2.2f %%'%(pickedTraces /
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numtraces * 100)],
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'mean SNR': np.mean(snrlist),
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'mean distance': np.mean(dist)}
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return info_dict
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def saveSurvey(self, filename = 'survey.pickle'):
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import cPickle
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outfile = open(filename, 'wb')
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cPickle.dump(self, outfile, -1)
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print('saved Survey to file %s'%(filename))
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@staticmethod
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def from_pickle(filename):
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import cPickle
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infile = open(filename, 'rb')
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return cPickle.load(infile)
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204
pylot/core/active/fmtomo2vtk.py
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204
pylot/core/active/fmtomo2vtk.py
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@ -0,0 +1,204 @@
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def vgrids2VTK(inputfile = 'vgrids.in', outputfile = 'vgrids.vtk'):
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'''
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Generate a vtk-file readable by e.g. paraview from FMTOMO output vgrids.in
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'''
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def getDistance(angle):
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PI = np.pi
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R = 6371.
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distance = angle / 180 * (PI * R)
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return distance
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def readNumberOfPoints(filename):
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fin = open(filename, 'r')
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vglines = fin.readlines()
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nR = int(vglines[1].split()[0])
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nTheta = int(vglines[1].split()[1])
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nPhi = int(vglines[1].split()[2])
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fin.close()
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return nR, nTheta, nPhi
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def readDelta(filename):
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fin = open(filename, 'r')
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vglines = fin.readlines()
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dR = float(vglines[2].split()[0])
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dTheta = float(vglines[2].split()[1])
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dPhi = float(vglines[2].split()[2])
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fin.close()
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return dR, dTheta, dPhi
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def readStartpoints(filename):
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fin = open(filename, 'r')
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vglines = fin.readlines()
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sR = float(vglines[3].split()[0])
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sTheta = float(vglines[3].split()[1])
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sPhi = float(vglines[3].split()[2])
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fin.close()
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return sR, sTheta, sPhi
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def readVelocity(filename):
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vel = []; count = 0
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fin = open(filename, 'r')
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vglines = fin.readlines()
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for line in vglines:
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count += 1
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if count > 4:
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vel.append(float(line.split()[0]))
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print("Read %d points out of file: %s" %(count - 4, filename))
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return vel
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R = 6371 # earth radius
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outfile = open(outputfile, 'w')
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# Theta, Phi in radians, R in km
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nR, nTheta, nPhi = readNumberOfPoints(inputfile)
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dR, dTheta, dPhi = readDelta(inputfile)
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sR, sTheta, sPhi = readStartpoints(inputfile)
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vel = readVelocity(inputfile)
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nX = nPhi; nY = nTheta; nZ = nR
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sZ = sR - R
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sX = getDistance(np.rad2deg(sPhi))
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sY = getDistance(np.rad2deg(sTheta))
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dX = getDistance(np.rad2deg(dPhi))
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dY = getDistance(np.rad2deg(dTheta))
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xGrid = np.linspace(sX, sX + (dX * nX), nX)
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yGrid = np.linspace(sZ, sZ + (nY * dY), nY)
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zGrid = np.linspace(sZ, sZ + (nR * dR), nR)
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nPoints = len(xGrid) * len(yGrid) * len(zGrid)
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# write header
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print("Writing header for VTK file...")
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outfile.writelines('# vtk DataFile Version 3.1\n')
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outfile.writelines('Velocity on FMTOMO vgrids.in points\n')
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outfile.writelines('ASCII\n')
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outfile.writelines('DATASET POLYDATA\n')
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outfile.writelines('POINTS %15d float\n' %(nPoints))
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# write coordinates
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print("Writing coordinates to VTK file...")
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for z in zGrid:
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for y in yGrid:
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for x in xGrid:
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outfile.writelines('%10f %10f %10f \n' %(x, y, z))
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outfile.writelines('VERTICES %15d %15d\n' %(nPoints, 2 * nPoints))
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# write indices
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print("Writing indices to VTK file...")
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for index in range(nPoints):
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outfile.writelines('%10d %10d\n' %(1, index))
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outfile.writelines('POINT_DATA %15d\n' %(nPoints))
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outfile.writelines('SCALARS velocity float %d\n' %(1))
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outfile.writelines('LOOKUP_TABLE default\n')
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# write velocity
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print("Writing velocity values to VTK file...")
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for velocity in vel:
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outfile.writelines('%10f\n' %velocity)
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outfile.close()
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print("Wrote velocity grid for %d points to file: %s" %(nPoints, outputfile))
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return
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def rays2VTK(fnin, fdirout = './vtk_files/', nthPoint = 50):
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'''
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Writes VTK file(s) for FMTOMO rays from rays.dat
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:param: nthPoint, plot every nth point of the ray
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:type: integer
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'''
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def getDistance(angle):
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PI = np.pi
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R = 6371.
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distance = angle / 180 * (PI * R)
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return distance
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infile = open(fnin, 'r')
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R = 6371
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rays = {}
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raynumber = 0
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nPoints = 0
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### NOTE: rays.dat seems to be in km and radians
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while True:
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raynumber += 1
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firstline = infile.readline()
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if firstline == '': break # break at EOF
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shotnumber = int(firstline.split()[1])
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nRayPoints = int(infile.readline().split()[0])
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if not shotnumber in rays.keys():
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rays[shotnumber] = {}
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rays[shotnumber][raynumber] = []
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for index in range(nRayPoints):
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if index%nthPoint is 0 or index == nRayPoints:
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rad, lat, lon = infile.readline().split()
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rays[shotnumber][raynumber].append([getDistance(np.rad2deg(float(lon))), getDistance(np.rad2deg(float(lat))), float(rad) - R])
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else:
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dummy = infile.readline()
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infile.close()
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for shotnumber in rays.keys():
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fnameout = fdirout + 'rays%03d.vtk'%(shotnumber)
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outfile = open(fnameout, 'w')
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nPoints = 0
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for raynumber in rays[shotnumber]:
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for ray in rays[shotnumber][raynumber]:
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nPoints += 1
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# write header
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#print("Writing header for VTK file...")
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print("Writing shot %d to file %s" %(shotnumber, fnameout))
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outfile.writelines('# vtk DataFile Version 3.1\n')
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outfile.writelines('FMTOMO rays\n')
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outfile.writelines('ASCII\n')
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outfile.writelines('DATASET POLYDATA\n')
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outfile.writelines('POINTS %15d float\n' %(nPoints))
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# write coordinates
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#print("Writing coordinates to VTK file...")
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for raynumber in rays[shotnumber].keys():
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for raypoint in rays[shotnumber][raynumber]:
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outfile.writelines('%10f %10f %10f \n' %(raypoint[0], raypoint[1], raypoint[2]))
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outfile.writelines('LINES %15d %15d\n' %(len(rays[shotnumber]), len(rays[shotnumber]) + nPoints))
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# write indices
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#print("Writing indices to VTK file...")
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count = 0
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for raynumber in rays[shotnumber].keys():
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outfile.writelines('%d ' %(len(rays[shotnumber][raynumber])))
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for index in range(len(rays[shotnumber][raynumber])):
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outfile.writelines('%d ' %(count))
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count += 1
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outfile.writelines('\n')
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# outfile.writelines('POINT_DATA %15d\n' %(nPoints))
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# outfile.writelines('SCALARS rays float %d\n' %(1))
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# outfile.writelines('LOOKUP_TABLE default\n')
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# # write velocity
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# print("Writing velocity values to VTK file...")
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# for velocity in vel:
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# outfile.writelines('%10f\n' %velocity)
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# outfile.close()
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# print("Wrote velocity grid for %d points to file: %s" %(nPoints, outputfile))
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103
pylot/core/active/picking_script.py
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103
pylot/core/active/picking_script.py
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import sys
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from obspy import read
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from obspy import Stream
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from obspy import Trace
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from datetime import datetime
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import numpy as np
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from pylot.core.active import surveyUtils
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from pylot.core.active import seismicshot
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import activeSeismoPick
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reload(seismicshot)
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reload(surveyUtils)
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#####################################################################################
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# parameter definitions:#############################################################
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#traceslist = list(np.arange(1, 49, 1)) # traces (1-48)
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#shotlist = list(np.arange(302, 352, 1)) # shot-files(.dat) (Paffrath: 302-352) (Hauburg: 353-401) (arange+1!)
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cutwindow = (0, 0.2) # cut out a part of the trace [seconds]
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tmovwind = 0.3 # size of the moving window
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windowsize = (5, 0) # windowsize for AIC picker (indices around HOS picks!!)
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pickwindow = cutwindow # for local max and threshold picker: fraction of the seismogram used (0...1) TO BE DONE: depends on cutwindow!!!!
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folm = 0.6
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rockeskyll = False
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if rockeskyll == True:
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receiverfile = "Geophone_interpoliert_rockes"
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sourcefile = "Schusspunkte_rockes"
|
||||
obsdir = "../rockeskyll_200615_270615/"
|
||||
else:
|
||||
receiverfile = "Geophone_interpoliert_GZB"
|
||||
sourcefile = "Schusspunkte_GZB"
|
||||
obsdir = "../GZB_26_06_15_01/"
|
||||
|
||||
# SNR
|
||||
tsignal = 0.03
|
||||
tgap = 0.0007
|
||||
snrthreshold = 1
|
||||
######################################################################################
|
||||
|
||||
vmin = 333
|
||||
vmax = 5500
|
||||
distBinSize = 2
|
||||
|
||||
###########################################
|
||||
############# Settings: ###################
|
||||
thresholdpick=True
|
||||
localmaxpick=False
|
||||
|
||||
if thresholdpick == True: pickmethod = "threshold"
|
||||
if localmaxpick == True: pickmethod = "localmax"
|
||||
|
||||
HosAic = 'hos' # can be 'hos' or 'aic'
|
||||
###########################################
|
||||
|
||||
starttime = datetime.now()
|
||||
|
||||
print '\n--------------------Starting Script at %s -------------------\n' %starttime.time()
|
||||
if thresholdpick == True: print 'Using treshold pickmethod!\n'
|
||||
elif localmaxpick == True: print 'Using local maximum pick method!\n'
|
||||
if HosAic == 'aic': print 'picking with AIC\n'
|
||||
if HosAic == 'hos': print 'picking with HOS\n'
|
||||
|
||||
survey = activeSeismoPick.Survey(obsdir, sourcefile, receiverfile, True)
|
||||
surveyUtils.setFittedSNR(survey.getShotDict())
|
||||
print '\nDone after %s seconds!\n------------------------------------------------------------------------------\n' % (datetime.now() - starttime).seconds
|
||||
|
||||
count = 0; tpicksum = starttime - starttime
|
||||
|
||||
for shot in survey.data.values():
|
||||
tstartpick = datetime.now(); count += 1
|
||||
for traceID in shot.getTraceIDlist():
|
||||
distance = shot.getDistance(traceID) # receive distance
|
||||
|
||||
pickwin_used = pickwindow # use pickwindow set in the parameter section
|
||||
# for higher distances use a linear vmin/vmax to cut out late/early regions with high noise
|
||||
if distance > 5.:
|
||||
pwleft = distance/vmax ################## TEST
|
||||
pwright = distance/vmin
|
||||
if pwright > cutwindow[1]:
|
||||
pwright = cutwindow[1]
|
||||
pickwin_used = (pwleft, pwright)
|
||||
|
||||
shot.setPickwindow(traceID, pickwin_used)
|
||||
shot.pickTraces(traceID, windowsize, folm, HosAic) # picker
|
||||
#shot.setManualPicks(traceID, picklist) # set manual picks if given (yet used on 2D only)
|
||||
|
||||
# ++ TEST: set and check SNR before adding to distance bin ############################
|
||||
shot.setSNR(traceID)
|
||||
#if shot.getSNR(traceID)[0] < snrthreshold:
|
||||
if shot.getSNR(traceID)[0] < shot.getSNRthreshold(traceID):
|
||||
shot.removePick(traceID)
|
||||
# -- TEST: set and check SNR before adding to distance bin ############################
|
||||
|
||||
if shot.getPick(traceID) is not None:
|
||||
shot.setEarllatepick(traceID)
|
||||
|
||||
tpicksum += (datetime.now() - tstartpick); tpick = tpicksum/count
|
||||
tremain = (tpick * (len(survey.getShotDict()) - count))
|
||||
tend = datetime.now() + tremain
|
||||
print 'shot: %s, est. time to be finished is %s:%s:%s' % (shot.getShotname(), tend.hour, tend.minute, tend.second)
|
||||
|
||||
print '\n--- Finished script ---'
|
||||
print 'Elapsed time:', datetime.now()-starttime
|
||||
665
pylot/core/active/seismicArrayPreperation.py
Normal file
665
pylot/core/active/seismicArrayPreperation.py
Normal file
@ -0,0 +1,665 @@
|
||||
import sys
|
||||
import numpy as np
|
||||
from scipy.interpolate import griddata
|
||||
|
||||
class SeisArray(object):
|
||||
'''
|
||||
Can be used to interpolate missing values of a receiver grid, if only support points were measured.
|
||||
Input file should contain in each line: ('traceID' 'receiverLineID' 'number of the geophone on recLine' 'X' 'Y' 'Z')
|
||||
|
||||
Can be used to generate a velocity grid file (vgrids.in) for FMTOMO with a topography adapting gradient.
|
||||
|
||||
Can be used to generate an interface file for FMTOMO (right now only interface.z used by grid3dg) for the topography.
|
||||
|
||||
Supports vtk output for sources and receivers.
|
||||
Note: Source and Receiver files for FMTOMO will be generated by the Survey object (because traveltimes will be added directly).
|
||||
'''
|
||||
def __init__(self, recfile):
|
||||
self._receiverlines = {}
|
||||
self._receiverCoords = {}
|
||||
self._measuredReceivers = {}
|
||||
self._measuredTopo = {}
|
||||
self._sourceLocs = {}
|
||||
self._geophoneNumbers = {}
|
||||
self._receiverlist = open(recfile, 'r').readlines()
|
||||
self._generateReceiverlines()
|
||||
self._setReceiverCoords()
|
||||
self._setGeophoneNumbers()
|
||||
|
||||
def _generateReceiverlines(self):
|
||||
'''
|
||||
Connects the traceIDs to the lineIDs
|
||||
for each receiverline in a dictionary.
|
||||
'''
|
||||
for receiver in self._receiverlist:
|
||||
traceID = int(receiver.split()[0])
|
||||
lineID = int(receiver.split()[1])
|
||||
if not lineID in self._receiverlines.keys():
|
||||
self._receiverlines[lineID] = []
|
||||
self._receiverlines[lineID].append(traceID)
|
||||
|
||||
def _setReceiverCoords(self):
|
||||
'''
|
||||
Fills the three x, y, z dictionaries with measured coordinates
|
||||
'''
|
||||
for line in self._getReceiverlist():
|
||||
traceID = int(line.split()[0])
|
||||
x = float(line.split()[3])
|
||||
y = float(line.split()[4])
|
||||
z = float(line.split()[5])
|
||||
self._receiverCoords[traceID] = (x, y, z)
|
||||
self._measuredReceivers[traceID] = (x, y, z)
|
||||
|
||||
def _setGeophoneNumbers(self):
|
||||
for line in self._getReceiverlist():
|
||||
traceID = int(line.split()[0])
|
||||
gphoneNum = float(line.split()[2])
|
||||
self._geophoneNumbers[traceID] = gphoneNum
|
||||
|
||||
def _getReceiverlines(self):
|
||||
return self._receiverlines
|
||||
|
||||
def _getReceiverlist(self):
|
||||
return self._receiverlist
|
||||
|
||||
def getReceiverCoordinates(self):
|
||||
return self._receiverCoords
|
||||
|
||||
def _getXreceiver(self, traceID):
|
||||
return self._receiverCoords[traceID][0]
|
||||
|
||||
def _getYreceiver(self, traceID):
|
||||
return self._receiverCoords[traceID][1]
|
||||
|
||||
def _getZreceiver(self, traceID):
|
||||
return self._receiverCoords[traceID][2]
|
||||
|
||||
def _getXshot(self, shotnumber):
|
||||
return self._sourceLocs[shotnumber][0]
|
||||
|
||||
def _getYshot(self, shotnumber):
|
||||
return self._sourceLocs[shotnumber][1]
|
||||
|
||||
def _getZshot(self, shotnumber):
|
||||
return self._sourceLocs[shotnumber][2]
|
||||
|
||||
def _getReceiverValue(self, traceID, coordinate):
|
||||
setCoordinate = {'X': self._getXreceiver,
|
||||
'Y': self._getYreceiver,
|
||||
'Z': self._getZreceiver}
|
||||
return setCoordinate[coordinate](traceID)
|
||||
|
||||
def _getGeophoneNumber(self, traceID):
|
||||
return self._geophoneNumbers[traceID]
|
||||
|
||||
def getMeasuredReceivers(self):
|
||||
return self._measuredReceivers
|
||||
|
||||
def getMeasuredTopo(self):
|
||||
return self._measuredTopo
|
||||
|
||||
def getSourceLocations(self):
|
||||
return self._sourceLocs
|
||||
|
||||
def _setXvalue(self, traceID, value):
|
||||
self._checkKey(traceID)
|
||||
self._receiverCoords[traceID][0] = value
|
||||
|
||||
def _setYvalue(self, traceID, value):
|
||||
self._checkKey(traceID)
|
||||
self._receiverCoords[traceID][1] = value
|
||||
|
||||
def _setZvalue(self, traceID, value):
|
||||
self._checkKey(traceID)
|
||||
self._receiverCoords[traceID][2] = value
|
||||
|
||||
def _setValue(self, traceID, coordinate, value):
|
||||
setCoordinate = {'X': self._setXvalue,
|
||||
'Y': self._setYvalue,
|
||||
'Z': self._setZvalue}
|
||||
setCoordinate[coordinate](traceID, value)
|
||||
|
||||
def _checkKey(self, traceID):
|
||||
if not traceID in self._receiverCoords.keys():
|
||||
self._receiverCoords[traceID] = [None, None, None]
|
||||
|
||||
def _checkTraceIDdirection(self, traceID1, traceID2):
|
||||
if traceID2 > traceID1:
|
||||
direction = +1
|
||||
return direction
|
||||
if traceID2 < traceID1:
|
||||
direction = -1
|
||||
return direction
|
||||
print "Error: Same Value for traceID1 = %s and traceID2 = %s" %(traceID1, traceID2)
|
||||
|
||||
def _checkCoordDirection(self, traceID1, traceID2, coordinate):
|
||||
'''
|
||||
Checks whether the interpolation direction is positive or negative
|
||||
'''
|
||||
if self._getReceiverValue(traceID1, coordinate) < self._getReceiverValue(traceID2, coordinate):
|
||||
direction = +1
|
||||
return direction
|
||||
if self._getReceiverValue(traceID1, coordinate) > self._getReceiverValue(traceID2, coordinate):
|
||||
direction = -1
|
||||
return direction
|
||||
print "Error: Same Value for traceID1 = %s and traceID2 = %s" %(traceID1, traceID2)
|
||||
|
||||
def _interpolateMeanDistances(self, traceID1, traceID2, coordinate):
|
||||
'''
|
||||
Returns the mean distance between two traceID's depending on the number of geophones in between
|
||||
'''
|
||||
num_spaces = abs(self._getGeophoneNumber(traceID1) - self._getGeophoneNumber(traceID2))
|
||||
mean_distance = abs(self._getReceiverValue(traceID1, coordinate) - self._getReceiverValue(traceID2, coordinate))/num_spaces
|
||||
return mean_distance
|
||||
|
||||
def interpolateValues(self, coordinate):
|
||||
'''
|
||||
Interpolates and sets all values (linear) for coordinate = 'X', 'Y' or 'Z'
|
||||
'''
|
||||
for lineID in self._getReceiverlines().keys():
|
||||
number_measured = len(self._getReceiverlines()[lineID])
|
||||
for index, traceID1 in enumerate(self._getReceiverlines()[lineID]):
|
||||
if index + 1 < number_measured:
|
||||
traceID2 = self._getReceiverlines()[lineID][index + 1]
|
||||
|
||||
traceID_dir = self._checkTraceIDdirection(traceID1, traceID2)
|
||||
traceID_interp = traceID1 + traceID_dir
|
||||
|
||||
coord_dir = self._checkCoordDirection(traceID1, traceID2, coordinate)
|
||||
mean_distance = self._interpolateMeanDistances(traceID1, traceID2, coordinate)
|
||||
|
||||
while (traceID_dir * traceID_interp) < (traceID_dir * traceID2):
|
||||
self._setValue(traceID_interp, coordinate,
|
||||
(self._getReceiverValue(traceID_interp - traceID_dir, coordinate)
|
||||
+ coord_dir * (mean_distance)))
|
||||
traceID_interp += traceID_dir
|
||||
|
||||
def addMeasuredTopographyPoints(self, filename):
|
||||
'''
|
||||
Use more measured points for a higher precision of height interpolation.
|
||||
Input file should contain in each line: ('point ID' 'X' 'Y' 'Z')
|
||||
'''
|
||||
topolist = open(filename, 'r').readlines()
|
||||
for line in topolist:
|
||||
line = line.split()
|
||||
pointID = int(line[0])
|
||||
x = float(line[1])
|
||||
y = float(line[2])
|
||||
z = float(line[3])
|
||||
self._measuredTopo[pointID] = (x, y, z)
|
||||
|
||||
def addSourceLocations(self, filename):
|
||||
'''
|
||||
Use source locations for a higher precision of height interpolation.
|
||||
Input file should contain in each line: ('point ID' 'X' 'Y' 'Z')
|
||||
|
||||
Source locations must be added before they can be written to vtk files.
|
||||
'''
|
||||
topolist = open(filename, 'r').readlines()
|
||||
for line in topolist:
|
||||
line = line.split()
|
||||
pointID = int(line[0])
|
||||
x = float(line[1])
|
||||
y = float(line[2])
|
||||
z = float(line[3])
|
||||
self._sourceLocs[pointID] = (x, y, z)
|
||||
|
||||
def interpZcoords4rec(self, method = 'linear'):
|
||||
'''
|
||||
Interpolates z values for all receivers.
|
||||
'''
|
||||
measured_x, measured_y, measured_z = self.getAllMeasuredPointsLists()
|
||||
|
||||
for traceID in self.getReceiverCoordinates().keys():
|
||||
if type(self.getReceiverCoordinates()[traceID]) is not tuple:
|
||||
z = griddata((measured_x, measured_y), measured_z, (self._getXreceiver(traceID), self._getYreceiver(traceID)), method = method)
|
||||
self._setZvalue(traceID, float(z))
|
||||
|
||||
def _getAngle(self, distance):
|
||||
'''
|
||||
Function returns the angle on a Sphere of the radius R = 6371 [km] for a distance [km].
|
||||
'''
|
||||
PI = np.pi
|
||||
R = 6371.
|
||||
angle = distance * 180 / (PI * R)
|
||||
return angle
|
||||
|
||||
def _getDistance(self, angle):
|
||||
'''
|
||||
Function returns the distance [km] on a Sphere of the radius R = 6371 [km] for an angle.
|
||||
'''
|
||||
PI = np.pi
|
||||
R = 6371.
|
||||
distance = angle / 180 * (PI * R)
|
||||
return distance
|
||||
|
||||
def getMeasuredReceiverLists(self):
|
||||
'''
|
||||
Returns a list of all measured receivers known to SeisArray.
|
||||
'''
|
||||
x = []; y = []; z = []
|
||||
for traceID in self.getMeasuredReceivers().keys():
|
||||
x.append(self.getMeasuredReceivers()[traceID][0])
|
||||
y.append(self.getMeasuredReceivers()[traceID][1])
|
||||
z.append(self.getMeasuredReceivers()[traceID][2])
|
||||
return x, y, z
|
||||
|
||||
def getMeasuredTopoLists(self):
|
||||
'''
|
||||
Returns a list of all measured topography points known to the SeisArray.
|
||||
'''
|
||||
x = []; y = []; z = []
|
||||
for pointID in self.getMeasuredTopo().keys():
|
||||
x.append(self.getMeasuredTopo()[pointID][0])
|
||||
y.append(self.getMeasuredTopo()[pointID][1])
|
||||
z.append(self.getMeasuredTopo()[pointID][2])
|
||||
return x, y, z
|
||||
|
||||
def getSourceLocsLists(self):
|
||||
'''
|
||||
Returns a list of all measured source locations known to SeisArray.
|
||||
'''
|
||||
x = []; y = []; z = []
|
||||
for pointID in self.getSourceLocations().keys():
|
||||
x.append(self.getSourceLocations()[pointID][0])
|
||||
y.append(self.getSourceLocations()[pointID][1])
|
||||
z.append(self.getSourceLocations()[pointID][2])
|
||||
return x, y, z
|
||||
|
||||
def getAllMeasuredPointsLists(self):
|
||||
'''
|
||||
Returns a list of all measured points known to SeisArray.
|
||||
'''
|
||||
mtopo_x, mtopo_y, mtopo_z = self.getMeasuredTopoLists()
|
||||
msource_x, msource_y, msource_z = self.getSourceLocsLists()
|
||||
mrec_x, mrec_y, mrec_z = self.getMeasuredReceiverLists()
|
||||
|
||||
x = mtopo_x + mrec_x + msource_x
|
||||
y = mtopo_y + mrec_y + msource_y
|
||||
z = mtopo_z + mrec_z + msource_z
|
||||
return x, y, z
|
||||
|
||||
def getReceiverLists(self):
|
||||
'''
|
||||
Returns a list of all receivers (measured and interpolated).
|
||||
'''
|
||||
x = []; y =[]; z = []
|
||||
for traceID in self.getReceiverCoordinates().keys():
|
||||
x.append(self.getReceiverCoordinates()[traceID][0])
|
||||
y.append(self.getReceiverCoordinates()[traceID][1])
|
||||
z.append(self.getReceiverCoordinates()[traceID][2])
|
||||
return x, y, z
|
||||
|
||||
def _interpolateXY4rec(self):
|
||||
'''
|
||||
Interpolates the X and Y coordinates for all receivers.
|
||||
'''
|
||||
for coordinate in ('X', 'Y'):
|
||||
self.interpolateValues(coordinate)
|
||||
|
||||
def interpolateAll(self):
|
||||
self._interpolateXY4rec()
|
||||
self.interpZcoords4rec()
|
||||
|
||||
def interpolateTopography(self, nTheta, nPhi, thetaSN, phiWE, method = 'linear', filename = 'interface1.in'):
|
||||
'''
|
||||
Interpolate Z values on a regular grid with cushion nodes to use it as FMTOMO topography interface.
|
||||
Returns a surface in form of a list of points [[x1, y1, z1], [x2, y2, y2], ...] (cartesian).
|
||||
|
||||
:param: nTheta, number of points in theta (NS)
|
||||
type: integer
|
||||
|
||||
:param: nPhi, number of points in phi (WE)
|
||||
type: integer
|
||||
|
||||
:param: thetaSN (S, N) extensions of the model in degree
|
||||
type: tuple
|
||||
|
||||
:param: phiWE (W, E) extensions of the model in degree
|
||||
type: tuple
|
||||
'''
|
||||
|
||||
surface = []
|
||||
elevation = 0.25 # elevate topography so that no source lies above the surface
|
||||
|
||||
if filename is not None:
|
||||
outfile = open(filename, 'w')
|
||||
|
||||
print "Interpolating topography on regular grid with the dimensions:"
|
||||
print "nTheta = %s, nPhi = %s, thetaSN = %s, phiWE = %s"%(nTheta, nPhi, thetaSN, phiWE)
|
||||
print "method = %s, filename = %s" %(method, filename)
|
||||
|
||||
thetaS, thetaN = thetaSN
|
||||
phiW, phiE = phiWE
|
||||
|
||||
measured_x, measured_y, measured_z = self.getAllMeasuredPointsLists()
|
||||
|
||||
# need to determine the delta to add two cushion nodes around the min/max values
|
||||
thetaDelta = (thetaN - thetaS) / (nTheta - 1)
|
||||
phiDelta = (phiE - phiW) / (nPhi - 1)
|
||||
|
||||
thetaGrid = np.linspace(thetaS - thetaDelta, thetaN + thetaDelta, num = nTheta + 2) # +2 cushion nodes
|
||||
phiGrid = np.linspace(phiW - phiDelta, phiE + phiDelta, num = nPhi + 2) # +2 cushion nodes
|
||||
|
||||
nTotal = len(thetaGrid) * len(phiGrid); count = 0
|
||||
for theta in thetaGrid:
|
||||
for phi in phiGrid:
|
||||
xval = self._getDistance(phi)
|
||||
yval = self._getDistance(theta)
|
||||
z = griddata((measured_x, measured_y), measured_z, (xval, yval), method = method)
|
||||
# in case the point lies outside, nan will be returned. Find nearest:
|
||||
if np.isnan(z) == True:
|
||||
z = griddata((measured_x, measured_y), measured_z, (xval, yval), method = 'nearest')
|
||||
z = float(z)
|
||||
surface.append((xval, yval, z))
|
||||
count += 1
|
||||
progress = float(count) / float(nTotal) * 100
|
||||
self._update_progress(progress)
|
||||
|
||||
if filename is not None:
|
||||
outfile.writelines('%10s\n'%(z + elevation))
|
||||
|
||||
return surface
|
||||
|
||||
def generateVgrid(self, nTheta = 80, nPhi = 80, nR = 120,
|
||||
thetaSN = (-0.2, 1.2), phiWE = (-0.2, 1.2),
|
||||
Rbt = (-62.0, 6.0), vbot = 5.5, filename = 'vgrids.in',
|
||||
method = 'linear' ):
|
||||
'''
|
||||
Generate a velocity grid for fmtomo regarding topography with a linear gradient starting at the topography with 0.34 [km/s].
|
||||
|
||||
:param: nTheta, number of points in theta (NS)
|
||||
type: integer
|
||||
|
||||
:param: nPhi, number of points in phi (WE)
|
||||
type: integer
|
||||
|
||||
:param: nR, number of points in depth
|
||||
type: integer
|
||||
|
||||
:param: thetaSN (S, N) extensions of the model in degree
|
||||
type: tuple
|
||||
|
||||
:param: phiWE (W, E) extensions of the model in degree
|
||||
type: tuple
|
||||
|
||||
:param: Rbt (bot, top) extensions of the model in km
|
||||
type: tuple
|
||||
|
||||
:param: vbot, velocity at the bottom of the model
|
||||
type: real
|
||||
'''
|
||||
|
||||
def getRad(angle):
|
||||
PI = np.pi
|
||||
rad = angle / 180 * PI
|
||||
return rad
|
||||
|
||||
def getZmax(surface):
|
||||
z = []
|
||||
for point in surface:
|
||||
z.append(point[2])
|
||||
return max(z)
|
||||
|
||||
R = 6371
|
||||
vmin = 0.34
|
||||
decm = 0.3 # diagonal elements of the covariance matrix (grid3dg's default value is 0.3)
|
||||
outfile = open(filename, 'w')
|
||||
|
||||
thetaS, thetaN = thetaSN
|
||||
phiW, phiE = phiWE
|
||||
rbot = Rbt[0] + R
|
||||
rtop = Rbt[1] + R
|
||||
|
||||
# need to determine the delta to add two cushion nodes around the min/max values
|
||||
thetaDelta = abs(thetaN - thetaS) / (nTheta - 1)
|
||||
phiDelta = abs(phiE - phiW) / (nPhi - 1)
|
||||
rDelta = abs(rbot - rtop) / (nR - 1)
|
||||
|
||||
# create a regular grid including +2 cushion nodes in every direction
|
||||
thetaGrid = np.linspace(thetaS - thetaDelta, thetaN + thetaDelta, num = nTheta + 2) # +2 cushion nodes
|
||||
phiGrid = np.linspace(phiW - phiDelta, phiE + phiDelta, num = nPhi + 2) # +2 cushion nodes
|
||||
rGrid = np.linspace(rbot - rDelta, rtop + rDelta, num = nR + 2) # +2 cushion nodes
|
||||
|
||||
nTotal = len(rGrid) * len(thetaGrid) * len(phiGrid)
|
||||
print "Total number of grid nodes: %s"%nTotal
|
||||
|
||||
# write header for velocity grid file (in RADIANS)
|
||||
outfile.writelines('%10s %10s \n' %(1, 1))
|
||||
outfile.writelines('%10s %10s %10s\n' %(nR + 2, nTheta + 2, nPhi + 2))
|
||||
outfile.writelines('%10s %10s %10s\n' %(rDelta, getRad(thetaDelta), getRad(phiDelta)))
|
||||
outfile.writelines('%10s %10s %10s\n' %(rbot - rDelta, getRad(thetaS - thetaDelta), getRad(phiW - phiDelta)))
|
||||
|
||||
surface = self.interpolateTopography(nTheta, nPhi, thetaSN, phiWE, method = method, filename = None)
|
||||
zmax = getZmax(surface)
|
||||
|
||||
print "\nGenerating velocity grid for FMTOMO. Output filename = %s, interpolation method = %s"%(filename, method)
|
||||
print "nTheta = %s, nPhi = %s, nR = %s, thetaSN = %s, phiWE = %s, Rbt = %s"%(nTheta, nPhi, nR, thetaSN, phiWE, Rbt)
|
||||
count = 0
|
||||
for radius in rGrid:
|
||||
for theta in thetaGrid:
|
||||
for phi in phiGrid:
|
||||
xval = self._getDistance(phi)
|
||||
yval = self._getDistance(theta)
|
||||
for point in surface:
|
||||
if point[0] == xval and point[1] == yval:
|
||||
z = point[2]
|
||||
if radius > (R + z + 1):
|
||||
vel = 0.0
|
||||
# elif radius > (R + z - 15): ########### TESTING
|
||||
# vel = (radius - z - R) / (Rbt[0] - rDelta - zmax) * 1.0 + vmin ##########################
|
||||
else:
|
||||
vel = (radius - z - R) / (Rbt[0] - rDelta - zmax) * vbot + vmin ##########################
|
||||
count += 1
|
||||
outfile.writelines('%10s %10s\n'%(vel, decm))
|
||||
|
||||
progress = float(count) / float(nTotal) * 100
|
||||
self._update_progress(progress)
|
||||
|
||||
outfile.close()
|
||||
|
||||
def exportAll(self, filename = 'interpolated_receivers.out'):
|
||||
recfile_out = open(filename, 'w')
|
||||
count = 0
|
||||
for traceID in self.getReceiverCoordinates().keys():
|
||||
count += 1
|
||||
x, y, z = self.getReceiverCoordinates()[traceID]
|
||||
recfile_out.writelines('%5s %15s %15s %15s\n' %(traceID, x, y, z))
|
||||
print "Exported coordinates for %s traces to file > %s" %(count, filename)
|
||||
recfile_out.close()
|
||||
|
||||
def plotArray2D(self, plot_topo = False, highlight_measured = False, annotations = True):
|
||||
import matplotlib.pyplot as plt
|
||||
plt.interactive(True)
|
||||
plt.figure()
|
||||
xmt, ymt, zmt = self.getMeasuredTopoLists()
|
||||
xsc, ysc, zsc = self.getSourceLocsLists()
|
||||
xmr, ymr, zmr = self.getMeasuredReceiverLists()
|
||||
xrc, yrc, zrc = self.getReceiverLists()
|
||||
|
||||
plt.plot(xrc, yrc, 'k.', markersize = 10, label = 'all receivers')
|
||||
plt.plot(xsc, ysc, 'b*', markersize = 10, label = 'shot locations')
|
||||
|
||||
if plot_topo == True:
|
||||
plt.plot(xmt, ymt, 'b', markersize = 10, label = 'measured topo points')
|
||||
if highlight_measured == True:
|
||||
plt.plot(xmr, ymr, 'ro', label = 'measured receivers')
|
||||
|
||||
plt.xlabel('X [m]')
|
||||
plt.ylabel('Y [m]')
|
||||
plt.legend()
|
||||
if annotations == True:
|
||||
for traceID in self.getReceiverCoordinates().keys():
|
||||
plt.annotate(str(traceID), xy = (self._getXreceiver(traceID), self._getYreceiver(traceID)), fontsize = 'x-small')
|
||||
|
||||
def plotArray3D(self, ax = None):
|
||||
import matplotlib.pyplot as plt
|
||||
from mpl_toolkits.mplot3d import Axes3D
|
||||
plt.interactive(True)
|
||||
|
||||
if ax == None:
|
||||
fig = plt.figure()
|
||||
ax = plt.axes(projection = '3d')
|
||||
|
||||
xmt, ymt, zmt = self.getMeasuredTopoLists()
|
||||
xmr, ymr, zmr = self.getMeasuredReceiverLists()
|
||||
xin, yin, zin = self.getReceiverLists()
|
||||
|
||||
ax.plot(xmt, ymt, zmt, 'b*', markersize = 10, label = 'measured topo points')
|
||||
ax.plot(xin, yin, zin, 'k.', markersize = 10, label = 'interpolated receivers')
|
||||
ax.plot(xmr, ymr, zmr, 'ro', label = 'measured receivers')
|
||||
ax.set_xlabel('X'); ax.set_ylabel('Y'); ax.set_zlabel('elevation')
|
||||
ax.legend()
|
||||
|
||||
return ax
|
||||
|
||||
|
||||
def plotSurface3D(self, ax = None, step = 0.5, method = 'linear'):
|
||||
from matplotlib import cm
|
||||
import matplotlib.pyplot as plt
|
||||
from mpl_toolkits.mplot3d import Axes3D
|
||||
plt.interactive(True)
|
||||
|
||||
if ax == None:
|
||||
fig = plt.figure()
|
||||
ax = plt.axes(projection = '3d')
|
||||
|
||||
xmt, ymt, zmt = self.getMeasuredTopoLists()
|
||||
xmr, ymr, zmr = self.getMeasuredReceiverLists()
|
||||
|
||||
x = xmt + xmr
|
||||
y = ymt + ymr
|
||||
z = zmt + zmr
|
||||
|
||||
xaxis = np.arange(min(x)+1, max(x), step)
|
||||
yaxis = np.arange(min(y)+1, max(y), step)
|
||||
|
||||
xgrid, ygrid = np.meshgrid(xaxis, yaxis)
|
||||
|
||||
zgrid = griddata((x, y), z, (xgrid, ygrid), method = method)
|
||||
|
||||
ax.plot_surface(xgrid, ygrid, zgrid, linewidth = 0, cmap = cm.jet, vmin = min(z), vmax = max(z))
|
||||
|
||||
ax.set_zlim(-(max(x) - min(x)/2),(max(x) - min(x)/2))
|
||||
ax.set_aspect('equal')
|
||||
|
||||
ax.set_xlabel('X'); ax.set_ylabel('Y'); ax.set_zlabel('elevation')
|
||||
ax.legend()
|
||||
|
||||
return ax
|
||||
|
||||
def _update_progress(self, progress):
|
||||
sys.stdout.write("%d%% done \r" % (progress) )
|
||||
sys.stdout.flush()
|
||||
|
||||
def receivers2VTK(self, filename = 'receivers.vtk'):
|
||||
'''
|
||||
Generates vtk files from all receivers of the SeisArray object.
|
||||
'''
|
||||
outfile = open(filename, 'w')
|
||||
traceIDs = []
|
||||
|
||||
for traceID in self.getReceiverCoordinates():
|
||||
traceIDs.append(traceID)
|
||||
|
||||
nPoints = len(traceIDs)
|
||||
|
||||
# write header
|
||||
print("Writing header for VTK file...")
|
||||
outfile.writelines('# vtk DataFile Version 3.1\n')
|
||||
outfile.writelines('Receivers with traceIDs\n')
|
||||
outfile.writelines('ASCII\n')
|
||||
outfile.writelines('DATASET POLYDATA\n')
|
||||
outfile.writelines('POINTS %15d float\n' %(nPoints))
|
||||
|
||||
# write coordinates
|
||||
print("Writing coordinates to VTK file...")
|
||||
for traceID in traceIDs:
|
||||
x = self._getXreceiver(traceID)
|
||||
y = self._getYreceiver(traceID)
|
||||
z = self._getZreceiver(traceID)
|
||||
|
||||
outfile.writelines('%10f %10f %10f \n' %(x, y, z))
|
||||
|
||||
outfile.writelines('VERTICES %15d %15d\n' %(nPoints, 2 * nPoints))
|
||||
|
||||
# write indices
|
||||
print("Writing indices to VTK file...")
|
||||
for index in range(nPoints):
|
||||
outfile.writelines('%10d %10d\n' %(1, index))
|
||||
|
||||
outfile.writelines('POINT_DATA %15d\n' %(nPoints))
|
||||
outfile.writelines('SCALARS traceIDs int %d\n' %(1))
|
||||
outfile.writelines('LOOKUP_TABLE default\n')
|
||||
|
||||
# write traceIDs
|
||||
print("Writing traceIDs to VTK file...")
|
||||
for traceID in traceIDs:
|
||||
outfile.writelines('%10d\n' %traceID)
|
||||
|
||||
outfile.close()
|
||||
print("Wrote receiver grid for %d points to file: %s" %(nPoints, filename))
|
||||
return
|
||||
|
||||
def sources2VTK(self, filename = 'sources.vtk'):
|
||||
'''
|
||||
Generates vtk-files for all source locations in the SeisArray object.
|
||||
'''
|
||||
outfile = open(filename, 'w')
|
||||
shotnumbers = []
|
||||
|
||||
for shotnumber in self.getSourceLocations():
|
||||
shotnumbers.append(shotnumber)
|
||||
|
||||
nPoints = len(shotnumbers)
|
||||
|
||||
# write header
|
||||
print("Writing header for VTK file...")
|
||||
outfile.writelines('# vtk DataFile Version 3.1\n')
|
||||
outfile.writelines('Shots with shotnumbers\n')
|
||||
outfile.writelines('ASCII\n')
|
||||
outfile.writelines('DATASET POLYDATA\n')
|
||||
outfile.writelines('POINTS %15d float\n' %(nPoints))
|
||||
|
||||
# write coordinates
|
||||
print("Writing coordinates to VTK file...")
|
||||
for shotnumber in shotnumbers:
|
||||
x = self._getXshot(shotnumber)
|
||||
y = self._getYshot(shotnumber)
|
||||
z = self._getZshot(shotnumber)
|
||||
|
||||
outfile.writelines('%10f %10f %10f \n' %(x, y, z))
|
||||
|
||||
outfile.writelines('VERTICES %15d %15d\n' %(nPoints, 2 * nPoints))
|
||||
|
||||
# write indices
|
||||
print("Writing indices to VTK file...")
|
||||
for index in range(nPoints):
|
||||
outfile.writelines('%10d %10d\n' %(1, index))
|
||||
|
||||
outfile.writelines('POINT_DATA %15d\n' %(nPoints))
|
||||
outfile.writelines('SCALARS shotnumbers int %d\n' %(1))
|
||||
outfile.writelines('LOOKUP_TABLE default\n')
|
||||
|
||||
# write shotnumber
|
||||
print("Writing shotnumbers to VTK file...")
|
||||
for shotnumber in shotnumbers:
|
||||
outfile.writelines('%10d\n' %shotnumber)
|
||||
|
||||
outfile.close()
|
||||
print("Wrote receiver grid for %d points to file: %s" %(nPoints, filename))
|
||||
return
|
||||
|
||||
|
||||
def saveSeisArray(self, filename = 'seisArray.pickle'):
|
||||
import cPickle
|
||||
outfile = open(filename, 'wb')
|
||||
|
||||
cPickle.dump(self, outfile, -1)
|
||||
print('saved SeisArray to file %s'%(filename))
|
||||
|
||||
@staticmethod
|
||||
def from_pickle(filename):
|
||||
import cPickle
|
||||
infile = open(filename, 'rb')
|
||||
return cPickle.load(infile)
|
||||
250
pylot/core/active/surveyPlotTools.py
Normal file
250
pylot/core/active/surveyPlotTools.py
Normal file
@ -0,0 +1,250 @@
|
||||
import matplotlib.pyplot as plt
|
||||
import math
|
||||
#from selectRegions import regions
|
||||
|
||||
plt.interactive(True)
|
||||
|
||||
def plotAllPicks(shot_dict, dist_med = None):
|
||||
'''
|
||||
Plots all picks over the distance between source and receiver. Returns (ax, region)
|
||||
'''
|
||||
dist = []
|
||||
pick = []
|
||||
snrloglist = []
|
||||
for shot in shot_dict.values():
|
||||
for traceID in shot.getTraceIDlist():
|
||||
if shot.getPick(traceID) is not None:
|
||||
dist.append(shot.getDistance(traceID))
|
||||
pick.append(shot.getPick(traceID))
|
||||
snrloglist.append(math.log10(shot.getSNR(traceID)[0]))
|
||||
|
||||
ax = createPlot(dist, pick, snrloglist, label = 'log10(SNR)')
|
||||
region = regions(ax, shot_dict)
|
||||
if dist_med is not None:
|
||||
ax = addDistMed(ax, dist_med)
|
||||
ax.legend()
|
||||
|
||||
return ax, region
|
||||
|
||||
def plotAllPicks_withCutOutTraces(shot_dict, dist_med = None):
|
||||
'''
|
||||
Plots all picks over the distance between source and receiver. Returns (ax, region)
|
||||
'''
|
||||
dist = []
|
||||
pick = []
|
||||
snrloglist = []
|
||||
for shot in shot_dict.values():
|
||||
for traceID in shot.getTraceIDlist():
|
||||
if shot.getSNR(traceID)[0] > 3:
|
||||
dist.append(shot.getDistance(traceID))
|
||||
pick.append(shot.getPick_backup(traceID))
|
||||
snrloglist.append(math.log10(shot.getSNR(traceID)[0]))
|
||||
|
||||
ax = createPlot(dist, pick, snrloglist, label = 'log10(SNR)')
|
||||
region = regions(ax, shot_dict)
|
||||
if dist_med is not None:
|
||||
ax = addDistMed(ax, dist_med)
|
||||
ax.legend()
|
||||
|
||||
return ax, region
|
||||
|
||||
def createPlot(dist, pick, inkByVal, label):
|
||||
cm = plt.cm.jet
|
||||
|
||||
fig = plt.figure()
|
||||
ax = fig.add_subplot(111)
|
||||
fig = ax.scatter(dist, pick, cmap = cm, c = inkByVal, s = 5, edgecolors = 'none', label = label)
|
||||
cbar = plt.colorbar(fig, fraction = 0.05)
|
||||
cbar.set_label(label)
|
||||
plt.title('Plot of all Picks')
|
||||
plt.xlabel('Distance [m]')
|
||||
plt.ylabel('Time [s]')
|
||||
|
||||
return ax
|
||||
|
||||
def addDistMed(ax, dist_med):
|
||||
'''
|
||||
Add shot dictionary containing the Median for several distancebins to the ax.
|
||||
'''
|
||||
x = []
|
||||
y = []
|
||||
for dist in dist_med.keys():
|
||||
x.append(dist)
|
||||
y.append(dist_med[dist])
|
||||
|
||||
xy = sorted(zip(x,y))
|
||||
x1 = [x for (x,y) in xy]
|
||||
y1 = [y for (x,y) in xy]
|
||||
|
||||
ax.plot(x1, y1, 'k', label = 'Median')
|
||||
|
||||
return ax
|
||||
|
||||
class regions(object):
|
||||
def __init__(self, ax, shot_dict):
|
||||
self.ax = ax
|
||||
self.shot_dict = shot_dict
|
||||
self._x0 = []
|
||||
self._y0 = []
|
||||
self._x1 = []
|
||||
self._y1 = []
|
||||
self.shots_found = {}
|
||||
self.shots_for_deletion = {}
|
||||
|
||||
def _onselect(self, eclick, erelease):
|
||||
'eclick and erelease are matplotlib events at press and release' #print ' startposition : (%f, %f)' % (eclick.xdata, eclick.ydata)
|
||||
#print ' endposition : (%f, %f)' % (erelease.xdata, erelease.ydata)
|
||||
print 'region selected x0, y0 = (%3s, %3s), x1, y1 = (%3s, %3s)'%(eclick.xdata, eclick.ydata, erelease.xdata, erelease.ydata)
|
||||
x0 = min(eclick.xdata, erelease.xdata)
|
||||
x1 = max(eclick.xdata, erelease.xdata)
|
||||
y0 = min(eclick.ydata, erelease.ydata)
|
||||
y1 = max(eclick.ydata, erelease.ydata)
|
||||
self._x0.append(x0)
|
||||
self._x1.append(x1)
|
||||
self._y0.append(y0)
|
||||
self._y1.append(y1)
|
||||
self.markCurrentRegion(x0, x1, y0, y1)
|
||||
|
||||
def chooseRectangles(self):
|
||||
from matplotlib.widgets import RectangleSelector
|
||||
|
||||
print 'Select rectangle is active'
|
||||
return RectangleSelector(self.ax, self._onselect)
|
||||
|
||||
def _getx0(self):
|
||||
return self._x0
|
||||
|
||||
def _getx1(self):
|
||||
return self._x1
|
||||
|
||||
def _gety0(self):
|
||||
return self._y0
|
||||
|
||||
def _gety1(self):
|
||||
return self._y1
|
||||
|
||||
def getShotDict(self):
|
||||
return self.shot_dict
|
||||
|
||||
def getShotsForDeletion(self):
|
||||
return self.shots_for_deletion
|
||||
|
||||
def findTracesInShotDict(self, picks = 'normal'):
|
||||
'''
|
||||
Returns traces corresponding to a certain area in a plot with all picks over the distances.
|
||||
'''
|
||||
print "findTracesInShotDict: Searching for marked traces in the shot dictionary... "
|
||||
|
||||
for shot in self.shot_dict.values():
|
||||
whichpicks = {'normal': shot.getPick,
|
||||
'includeCutOut': shot.getPick_backup}
|
||||
for index in range(len(self._getx1())):
|
||||
distancebin = (self._getx0()[index], self._getx1()[index])
|
||||
pickbin = (self._gety0()[index], self._gety1()[index])
|
||||
if shot.getTraceIDs4Dist(distancebin = distancebin) is not None:
|
||||
for traceID in shot.getTraceIDs4Dist(distancebin = distancebin):
|
||||
if pickbin[0] < whichpicks[picks](traceID) < pickbin[1]:
|
||||
self.highlightPick(shot, traceID)
|
||||
if shot.getShotnumber() not in self.shots_found.keys():
|
||||
self.shots_found[shot.getShotnumber()] = []
|
||||
if traceID not in self.shots_found[shot.getShotnumber()]:
|
||||
self.shots_found[shot.getShotnumber()].append(traceID)
|
||||
self.refreshFigure()
|
||||
print self.shots_found
|
||||
|
||||
def highlightPick(self, shot, traceID, annotations = True):
|
||||
self.ax.scatter(shot.getDistance(traceID), shot.getPick(traceID), s = 50, marker = 'o', facecolors = 'none', edgecolors = 'm', alpha = 1)
|
||||
if annotations == True:
|
||||
self.ax.annotate(s = 's%s|t%s'%(shot.getShotnumber(), traceID), xy = (shot.getDistance(traceID), shot.getPick(traceID)), fontsize = 'xx-small')
|
||||
self.ax.set_ylim(shot.getCut())
|
||||
|
||||
def plotTracesInRegion(self):
|
||||
import matplotlib.pyplot as plt
|
||||
count = 0
|
||||
maxfigures = 20
|
||||
# if len(self.shots_found) == 0:
|
||||
self.findTracesInShotDict()
|
||||
|
||||
if len(self.shots_found) > 0:
|
||||
for shot in self.shot_dict.values():
|
||||
for shotnumber in self.shots_found:
|
||||
if shot.getShotnumber() == shotnumber:
|
||||
for traceID in self.shots_found[shotnumber]:
|
||||
count += 1
|
||||
if count > maxfigures:
|
||||
print 'Maximum number of figures (%s) reached. %sth figure was not opened.' %(maxfigures, count)
|
||||
break
|
||||
shot.plot_traces(traceID)
|
||||
else:
|
||||
print 'No picks yet defined in the regions x = (%s, %s), y = (%s, %s)' %(self._x0, self._x1, self._y0, self._y1)
|
||||
|
||||
def plotTracesInRegion_withCutOutTraces(self):
|
||||
import matplotlib.pyplot as plt
|
||||
count = 0
|
||||
maxfigures = 20
|
||||
# if len(self.shots_found) == 0:
|
||||
self.findTracesInShotDict(picks = 'includeCutOut')
|
||||
|
||||
if len(self.shots_found) > 0:
|
||||
for shot in self.shot_dict.values():
|
||||
for shotnumber in self.shots_found:
|
||||
if shot.getShotnumber() == shotnumber:
|
||||
for traceID in self.shots_found[shotnumber]:
|
||||
count += 1
|
||||
if count > maxfigures:
|
||||
print 'Maximum number of figures (%s) reached. %sth figure was not opened.' %(maxfigures, count)
|
||||
break
|
||||
shot.plot_traces(traceID)
|
||||
else:
|
||||
print 'No picks yet defined in the regions x = (%s, %s), y = (%s, %s)' %(self._x0, self._x1, self._y0, self._y1)
|
||||
|
||||
|
||||
def setCurrentRegionsForDeletion(self):
|
||||
# if len(self.shots_found) == 0:
|
||||
self.findTracesInShotDict()
|
||||
|
||||
for shotnumber in self.shots_found:
|
||||
if not shotnumber in self.shots_for_deletion:
|
||||
self.shots_for_deletion[shotnumber] = []
|
||||
for traceID in self.shots_found[shotnumber]:
|
||||
if not traceID in self.shots_for_deletion[shotnumber]:
|
||||
self.shots_for_deletion[shotnumber].append(traceID)
|
||||
self.markAllRegions(color = 'red')
|
||||
print 'Marked regions for deletion'
|
||||
|
||||
def markAllRegions(self, color = 'grey'):
|
||||
from matplotlib.patches import Rectangle
|
||||
|
||||
for index in range(len(self._getx0())):
|
||||
x0 = self._getx0()[index]
|
||||
y0 = self._gety0()[index]
|
||||
x1 = self._getx1()[index]
|
||||
y1 = self._gety1()[index]
|
||||
|
||||
self.ax.add_patch(Rectangle((x0, y0), (x1 - x0), (y1 - y0), alpha=0.5, facecolor = color))
|
||||
self.refreshFigure()
|
||||
|
||||
def markCurrentRegion(self, x0, x1, y0, y1, color = 'grey'):
|
||||
from matplotlib.patches import Rectangle
|
||||
|
||||
self.ax.add_patch(Rectangle((x0, y0), (x1 - x0), (y1 - y0), alpha=0.1, facecolor = color))
|
||||
self.refreshFigure()
|
||||
|
||||
def deleteMarkedPicks(self):
|
||||
for shot in self.getShotDict().values():
|
||||
for shotnumber in self.getShotsForDeletion():
|
||||
if shot.getShotnumber() == shotnumber:
|
||||
for traceID in self.getShotsForDeletion()[shotnumber]:
|
||||
shot.removePick(traceID)
|
||||
print "Deleted the pick for traceID %s on shot number %s" %(traceID, shotnumber)
|
||||
self.shots_for_deletion = {} # clear dictionary
|
||||
|
||||
def highlightPicksForShot(self, shot, annotations = False):
|
||||
for traceID in shot.getTraceIDlist():
|
||||
if shot.getPick(traceID) is not None:
|
||||
self.highlightPick(shot, traceID, annotations)
|
||||
self.refreshFigure()
|
||||
|
||||
def refreshFigure(self):
|
||||
import matplotlib.pyplot as plt
|
||||
plt.draw()
|
||||
Loading…
Reference in New Issue
Block a user