improved speed on writing to file (write instead of writelines)
This commit is contained in:
parent
d8a764db31
commit
46c152b7a1
@ -6,32 +6,152 @@ import datetime
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import numpy as np
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class Tomo3d(object):
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def __init__(self, nproc):
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def __init__(self, nproc, iterations):
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self.setCWD()
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self.defParas()
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self.nproc = nproc
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self.iter = iterations # number of iterations
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self.citer = 0 # current iteration
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self.sources = self.readSrcFile()
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self.traces = self.readTraces()
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self.directories = []
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def defParas(self):
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self.fmm = 'fm3d'
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self.defFMMParas()
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self.defInvParas()
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def defFMMParas(self):
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self.fmm = '{0}/fm3d'.format(self.cwd)
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self.frechgen = '{0}/frechgen'.format(self.cwd)
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self.cvg = 'vgrids.in'
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self.cig = 'interfaces.in'
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self.csl = 'sources.in'
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self.pg = 'propgrid.in'
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self.rec = 'receivers.in'
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#self.ot = 'otimes.dat'
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self.frech = 'frechet.in'
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self.ot = 'otimes.dat'
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self.ttim = 'arrivals.dat'
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self.mode = 'mode_set.in'
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self.cwd = subprocess.check_output(['pwd'])[0:-1] + '/'
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self.folder = 'test_'
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self.folder = '.proc_'
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def defInvParas(self):
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# Name of program for performing inversion
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self.inv = '{0}/invert3d'.format(self.cwd)
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# Name of file containing current model traveltimes
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self.mtrav = 'mtimes.dat'
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# Name of file containing reference model traveltimes
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self.rtrav = 'rtimes.dat'
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# Name of file containing initial velocity grid
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self.ivg = 'vgridsref.in'
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# Name of file containing initial interface grid
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self.iig = 'interfacesref.in'
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# Name of file containing initial source locations
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self.isl = 'sourcesref.in'
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# Name of program for calculating traveltime residuals
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self.resid = '{0}/residuals'.format(self.cwd)
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# Name of output file for calculating traveltime residuals
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self.resout = 'residuals.dat'
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def copyRef(self):
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# Attention: Copies reference grids to used grids (e.g. sourcesref.in to sources.in)
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os.system('cp %s %s'%(self. ivg, self.cvg))
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os.system('cp %s %s'%(self.iig, self.cig))
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os.system('cp %s %s'%(self.isl, self.csl))
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def setCWD(self):
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self.cwd = subprocess.check_output(['pwd'])[0:-1]
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print('Working directory is pwd: %s'%self.cwd)
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def runFrech(self):
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os.system(self.frechgen)
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def runFmm(self, directory, logfile, processes):
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os.chdir(directory)
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processes.append(subprocess.Popen('fm3d', stdout = None))
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# os.system('%s > %s &'%(self.fmm, logfile))
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fout = open(logfile, 'w')
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processes.append(subprocess.Popen(self.fmm, stdout = fout))
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fout.close()
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os.chdir(self.cwd)
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return processes
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def calcRes(self):
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resout = os.path.join(self.cwd, self.resout)
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if self.citer == 0:
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os.system('%s > %s'%(self.resid, resout))
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else:
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os.system('%s >> %s'%(self.resid, resout))
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with open(resout, 'r') as infile:
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residuals = infile.readlines()
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RMS, var, chi2 = residuals[-1].split()
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print('Residuals: RMS = %s, var = %s, Chi^2 = %s.'%(RMS, var, chi2))
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def runTOMO3D(self):
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starttime = datetime.datetime.now()
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print('Starting TOMO3D on %s parallel processes for %s iteration(s).'
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%(self.nproc, self.iter))
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if self.citer == 0:
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self.startForward()
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self.raiseIter()
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while self.citer <= self.iter:
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self.startInversion()
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self.startForward()
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self.raiseIter()
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tdelta = datetime.datetime.now() - starttime
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print('runTOMO3D: Finished %s iterations after %s.'%(self.iter, tdelta))
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def _printLine(self):
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print('----------------------------------------')
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def raiseIter(self):
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self.citer +=1
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self._printLine()
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def startInversion(self):
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print('Calling %s...'%self.inv)
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os.system(self.inv)
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def startForward(self):
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self._printLine()
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print('Starting forward simulation for iteration %s.'%(self.citer))
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self.makeDirectories()
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starttime = datetime.datetime.now()
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processes = []
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if self.citer == 0:
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self.copyRef()
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self.runFrech()
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for procID in range(1, self.nproc + 1):
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directory = self.getProcDir(procID)
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log_out = self.cwd + '/fm3dlog_' + str(procID) + '.out'
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self.writeSrcFile(procID, directory)
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self.writeTracesFile(procID, directory)
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os.system('cp {cvg} {cig} {mode} {pg} {frechout} {dest}'
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.format(cvg=self.cvg, cig=self.cig, frechout=self.frech,
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mode=self.mode, pg=self.pg, dest=directory))
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processes = self.runFmm(directory, log_out, processes)
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for p in processes:
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p.wait()
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self.mergeOutput()
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self.clearDirectories()
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self.copyArrivals()
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if self.citer == 0:
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self.copyArrivals(self.rtrav)
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self.calcRes()
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tdelta = datetime.datetime.now() - starttime
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print('Finished Forward calculation after %s'%tdelta)
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def copyArrivals(self, target = None):
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if target == None:
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target = self.mtrav
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os.system('cp %s %s'%(self.ttim, target))
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def makeDIR(self, directory):
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err = os.system('mkdir %s'%directory)
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if err is 256:
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@ -40,6 +160,21 @@ class Tomo3d(object):
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print('Overwriting existing files.')
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else:
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sys.exit('Aborted')
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self.directories.append(directory)
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def clearDIR(self, directory):
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err = os.system('rm -r %s'%directory)
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def makeDirectories(self):
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for procID in range(1, self.nproc + 1):
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directory = self.getProcDir(procID)
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self.makeDIR(directory)
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def clearDirectories(self):
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for directory in self.directories:
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self.clearDIR(directory)
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self.directories = []
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def readNsrc(self):
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srcfile = open(self.csl, 'r')
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@ -73,29 +208,6 @@ class Tomo3d(object):
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start = (srcPK + 1) * remain + srcPK * (proc - remain) + 1
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return range(start, start + srcPK)
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def startTomo(self):
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starttime = datetime.datetime.now()
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processes = []
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for procID in range(1, self.nproc + 1):
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directory = self.getProcDir(procID)
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log_out = self.cwd + 'fm3dlog_' + str(procID) + '.out'
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self.makeDIR(directory) # Problem bei Iteration
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self.writeSrcFile(procID, directory)
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self.writeTracesFile(procID, directory)
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os.system('cp %s %s %s %s %s %s %s'
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%(self.cvg, self.cig, self.frech,
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self.fmm, self.mode, self.pg, directory))
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processes = self.runFmm(directory, log_out, processes)
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for p in processes:
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p.wait()
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self.mergeOutput()
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tdelta = datetime.datetime.now() - starttime
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print('Finished after %s'%tdelta)
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def readSrcFile(self):
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nsrc = self.readNsrc()
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srcfile = open(self.csl, 'r')
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@ -150,32 +262,32 @@ class Tomo3d(object):
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srcfile = open('%s/sources.in'%directory, 'w')
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sourceIDs = self.srcIDs4Kernel(procID)
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srcfile.writelines('%s\n'%len(sourceIDs))
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srcfile.write('%s\n'%len(sourceIDs))
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for sourceID in sourceIDs:
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source = self.sources[sourceID]
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coords = source['coords']
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interactions = source['interactions']
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srcfile.writelines('%s\n'%source['teleflag'])
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srcfile.writelines('%s %s %s\n'%(float(coords[0]), float(coords[1]), float(coords[2])))
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srcfile.writelines('%s\n'%source['numpaths'])
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srcfile.writelines('%s\n'%source['steps'])
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srcfile.writelines('%s %s\n'%(int(interactions[0]), int(interactions[1])))
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srcfile.writelines('%s\n'%source['veltype'])
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srcfile.write('%s\n'%source['teleflag'])
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srcfile.write('%s %s %s\n'%(float(coords[0]), float(coords[1]), float(coords[2])))
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srcfile.write('%s\n'%source['numpaths'])
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srcfile.write('%s\n'%source['steps'])
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srcfile.write('%s %s\n'%(int(interactions[0]), int(interactions[1])))
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srcfile.write('%s\n'%source['veltype'])
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def writeTracesFile(self, procID, directory):
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recfile = open('%s/receivers.in'%directory, 'w')
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sourceIDs = self.srcIDs4Kernel(procID)
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traceIDs = self.getTraceIDs4Sources(sourceIDs)
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recfile.writelines('%s\n'%len(traceIDs))
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recfile.write('%s\n'%len(traceIDs))
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for traceID in traceIDs:
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trace = self.traces[traceID]
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coords = trace['coords']
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source = int(trace['source']) - sourceIDs[0] + 1
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recfile.writelines('%s %s %s\n'%(float(coords[0]), float(coords[1]), float(coords[2])))
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recfile.writelines('%s\n'%trace['paths'])
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recfile.writelines('%s\n'%source)
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recfile.writelines('%s\n'%trace['path'])
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recfile.write('%s %s %s\n'%(float(coords[0]), float(coords[1]), float(coords[2])))
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recfile.write('%s\n'%trace['paths'])
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recfile.write('%s\n'%source)
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recfile.write('%s\n'%trace['path'])
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def getTraceIDs4Sources(self, sourceIDs):
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traceIDs = []
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@ -208,79 +320,139 @@ class Tomo3d(object):
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return arrivals
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def readFrechet(self, procID):
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directory = self.getProcDir(procID)
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frechfile = open(directory + '/frechet.dat', 'r')
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sourceIDs = self.srcIDs4Kernel(procID)
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frechet = {}
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for sourceID in sourceIDs:
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traceIDs = self.getTraceIDs4Source(sourceID)
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for traceID in traceIDs:
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line = frechfile.readline().split()
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if line != []:
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# recID and srcID for the individual processor will not be needed
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PDEV = []
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recID_proc, srcID_proc, ray, normal, NPDEV = line
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for i in range(int(NPDEV)):
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PDEV.append(frechfile.readline())
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frechet[traceID] = {'sourceID': sourceID,
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'raypath': ray,
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'normal': normal,
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'NPDEV': NPDEV,
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'PDEV': PDEV
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}
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return frechet
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def mergeArrivals(self):
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arrivalsOut = open(self.cwd + '/arrivals.dat', 'w')
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arrivalsOut = open(os.path.join(self.cwd, self.ttim), 'w')
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print('Merging arrivals.dat...')
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for procID in range(1, self.nproc + 1):
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arrivals = self.readArrivals(procID)
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for line in arrivals:
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arrivalsOut.writelines('%6s %6s %6s %6s %15s %5s %5s\n'%tuple(line))
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arrivalsOut.write('%6s %6s %6s %6s %15s %5s %5s\n'%tuple(line))
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def mergeFrechet(self):
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print('Merging frechet.dat...')
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frechetOut = open(self.cwd + '/frechet.dat', 'w')
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for procID in range(1, self.nproc + 1):
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frechet = self.readFrechet(procID)
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traceIDs = frechet.keys()
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traceIDs.sort()
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# def mergeFrechet(self):
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# print('Merging frechet.dat...')
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# frechetOut = open(self.cwd + '/frechet.dat', 'w')
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# for procID in range(1, self.nproc + 1):
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# frechet = self.readFrechet(procID)
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# traceIDs = frechet.keys()
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# traceIDs.sort()
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# for traceID in traceIDs:
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# frech = frechet[traceID]
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# frechetOut.write('%6s %6s %6s %6s %6s\n'%
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# (traceID,
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# frech['sourceID'],
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# frech['raypath'],
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# frech['normal'],
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# frech['NPDEV']))
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# for pdev in frech['PDEV']:
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# frechetOut.writelines(pdev)
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def readRays(self, procID):
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directory = self.getProcDir(procID)
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raysfile = open(directory + '/rays.dat', 'r')
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sourceIDs = self.srcIDs4Kernel(procID)
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rays = {}
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for sourceID in sourceIDs:
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traceIDs = self.getTraceIDs4Source(sourceID)
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for traceID in traceIDs:
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frech = frechet[traceID]
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frechetOut.writelines('%6s %6s %6s %6s %6s\n'%
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(traceID,
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frech['sourceID'],
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frech['raypath'],
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frech['normal'],
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frech['NPDEV']))
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for pdev in frech['PDEV']:
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frechetOut.writelines(pdev)
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line1 = raysfile.readline().split()
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if line1 != []:
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# recID and srcID for the individual processor will not be needed
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recID_proc, srcID_proc, ray, normal, nsec = line1
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raysecs = {}
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for sec in range(int(nsec)):
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line2 = raysfile.readline.split()
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npoints, region, diff, head = line2
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raypoints = []
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for j in range(int(npoints)):
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raypoints.append(raysfile.readline() + '\n')
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raysecs[sec] = {'npoints': npoints,
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'region': region,
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'diff': diff,
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'head': head,
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'raypoints': raypoints
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}
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rays[traceID] = {'sourceID': sourceID,
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'raypath': ray,
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'normal': normal,
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'nsec': nsec,
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'raysections': raysecs
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}
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return rays
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def mergeRays(self):
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print('Merging rays.dat...')
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filenames = []
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for procID in range(1, self.nproc + 1):
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directory = self.getProcDir(procID)
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filenames.append(directory + '/rays.dat')
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with open(self.cwd + 'rays.dat', 'w') as outfile:
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for fname in filenames:
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with open(fname) as infile:
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for line in infile:
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outfile.write(line)
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for procID in range(1, self.nproc + 1):
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rays = self.readRays(procID)
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for traceID in rays:
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ray = rays[traceID]
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outfile.write('%6s %6s %6s %6s %6s'%(traceID,
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ray['sourceID'],
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ray['raypath'],
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ray['normal'],
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ray['nsec']))
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for sec in range(int(ray['nsec'])):
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raysec = ray['raysections'][sec]
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outfile.write('%6s %6s %6s %6s'%(raysec['npoints'],
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raysec['region'],
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raysec['diff'],
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raysec['head']))
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outfile.writelines(raysec['raypoints'])
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# def readFrechet(self, procID):
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# directory = self.getProcDir(procID)
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# frechfile = open(directory + '/frechet.dat', 'r')
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# sourceIDs = self.srcIDs4Kernel(procID)
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# frechet = {}
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# for sourceID in sourceIDs:
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# traceIDs = self.getTraceIDs4Source(sourceID)
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# for traceID in traceIDs:
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# line = frechfile.readline().split()
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# if line != []:
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# # recID and srcID for the individual processor will not be needed
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# PDEV = []
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# recID_proc, srcID_proc, ray, normal, NPDEV = line
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# for i in range(int(NPDEV)):
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# PDEV.append(frechfile.readline())
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# frechet[traceID] = {'sourceID': sourceID,
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# 'raypath': ray,
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# 'normal': normal,
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# 'NPDEV': NPDEV,
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# 'PDEV': PDEV
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# }
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# return frechet
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def mergeFrechet(self):
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print('Merging frechet.dat...')
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with open(self.cwd + '/frechet.dat', 'w') as outfile:
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for procID in range(1, self.nproc + 1):
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filename = self.getProcDir(procID) + '/frechet.dat'
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with open(filename) as infile:
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for sourceID in self.srcIDs4Kernel(procID):
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for traceID in self.getTraceIDs4Source(sourceID):
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recID_proc, srcID_proc, ray, normal, NPDEV = infile.readline().split()
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outfile.write('%6s %6s %6s %6s %6s\n'%(traceID, sourceID, ray, normal, NPDEV))
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for index in range(int(NPDEV)):
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outfile.write(infile.readline())
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||||
|
||||
def getProcDir(self, procID):
|
||||
return self.cwd + self.folder + str(procID)
|
||||
return os.path.join(self.cwd, self.folder) + str(procID)
|
||||
|
||||
def mergeOutput(self):
|
||||
self.mergeArrivals()
|
||||
self.mergeFrechet()
|
||||
self.mergeRays()
|
||||
|
||||
|
||||
|
||||
|
||||
def vgrids2VTK(inputfile='vgrids.in', outputfile='vgrids.vtk', absOrRel='abs', inputfileref='vgridsref.in'):
|
||||
@ -314,23 +486,23 @@ def vgrids2VTK(inputfile='vgrids.in', outputfile='vgrids.vtk', absOrRel='abs', i
|
||||
|
||||
# write header
|
||||
print("Writing header for VTK file...")
|
||||
outfile.writelines('# vtk DataFile Version 3.1\n')
|
||||
outfile.writelines('Velocity on FMTOMO vgrids.in points\n')
|
||||
outfile.writelines('ASCII\n')
|
||||
outfile.writelines('DATASET STRUCTURED_POINTS\n')
|
||||
outfile.write('# vtk DataFile Version 3.1\n')
|
||||
outfile.write('Velocity on FMTOMO vgrids.in points\n')
|
||||
outfile.write('ASCII\n')
|
||||
outfile.write('DATASET STRUCTURED_POINTS\n')
|
||||
|
||||
outfile.writelines('DIMENSIONS %d %d %d\n' % (nX, nY, nZ))
|
||||
outfile.writelines('ORIGIN %f %f %f\n' % (sX, sY, sZ))
|
||||
outfile.writelines('SPACING %f %f %f\n' % (dX, dY, dZ))
|
||||
outfile.write('DIMENSIONS %d %d %d\n' % (nX, nY, nZ))
|
||||
outfile.write('ORIGIN %f %f %f\n' % (sX, sY, sZ))
|
||||
outfile.write('SPACING %f %f %f\n' % (dX, dY, dZ))
|
||||
|
||||
outfile.writelines('POINT_DATA %15d\n' % (nPoints))
|
||||
outfile.write('POINT_DATA %15d\n' % (nPoints))
|
||||
if absOrRel == 'abs':
|
||||
outfile.writelines('SCALARS velocity float %d\n' %(1))
|
||||
outfile.write('SCALARS velocity float %d\n' %(1))
|
||||
if absOrRel == 'relDepth':
|
||||
outfile.writelines('SCALARS velocity2depthMean float %d\n' %(1))
|
||||
outfile.write('SCALARS velocity2depthMean float %d\n' %(1))
|
||||
elif absOrRel == 'rel':
|
||||
outfile.writelines('SCALARS velChangePercent float %d\n' % (1))
|
||||
outfile.writelines('LOOKUP_TABLE default\n')
|
||||
outfile.write('SCALARS velChangePercent float %d\n' % (1))
|
||||
outfile.write('LOOKUP_TABLE default\n')
|
||||
|
||||
pointsPerR = nTheta * nPhi
|
||||
|
||||
@ -338,7 +510,7 @@ def vgrids2VTK(inputfile='vgrids.in', outputfile='vgrids.vtk', absOrRel='abs', i
|
||||
if absOrRel == 'abs':
|
||||
print("Writing velocity values to VTK file...")
|
||||
for velocity in vel:
|
||||
outfile.writelines('%10f\n' %velocity)
|
||||
outfile.write('%10f\n' %velocity)
|
||||
elif absOrRel == 'relDepth':
|
||||
print("Writing velocity values to VTK file relative to mean of each depth...")
|
||||
index = 0; count = 0
|
||||
@ -350,7 +522,7 @@ def vgrids2VTK(inputfile='vgrids.in', outputfile='vgrids.vtk', absOrRel='abs', i
|
||||
velmean = np.mean(veldepth)
|
||||
#print velmean, count, count/pointsPerR
|
||||
for vel in veldepth:
|
||||
outfile.writelines('%10f\n' %(vel - velmean))
|
||||
outfile.write('%10f\n' %(vel - velmean))
|
||||
veldepth = []
|
||||
elif absOrRel == 'rel':
|
||||
nref, dref, sref, velref = _readVgrid(inputfileref)
|
||||
@ -372,7 +544,7 @@ def vgrids2VTK(inputfile='vgrids.in', outputfile='vgrids.vtk', absOrRel='abs', i
|
||||
return
|
||||
print("Writing velocity values to VTK file...")
|
||||
for velocity in velrel:
|
||||
outfile.writelines('%10f\n' % velocity)
|
||||
outfile.write('%10f\n' % velocity)
|
||||
print('Pertubations: min: %s %%, max: %s %%' % (min(velrel), max(velrel)))
|
||||
|
||||
outfile.close()
|
||||
@ -430,29 +602,29 @@ def rays2VTK(fnin, fdirout='./vtk_files/', nthPoint=50):
|
||||
# write header
|
||||
# print("Writing header for VTK file...")
|
||||
print("Writing shot %d to file %s" % (shotnumber, fnameout))
|
||||
outfile.writelines('# vtk DataFile Version 3.1\n')
|
||||
outfile.writelines('FMTOMO rays\n')
|
||||
outfile.writelines('ASCII\n')
|
||||
outfile.writelines('DATASET POLYDATA\n')
|
||||
outfile.writelines('POINTS %15d float\n' % (nPoints))
|
||||
outfile.write('# vtk DataFile Version 3.1\n')
|
||||
outfile.write('FMTOMO rays\n')
|
||||
outfile.write('ASCII\n')
|
||||
outfile.write('DATASET POLYDATA\n')
|
||||
outfile.write('POINTS %15d float\n' % (nPoints))
|
||||
|
||||
# write coordinates
|
||||
# print("Writing coordinates to VTK file...")
|
||||
for raynumber in rays[shotnumber].keys():
|
||||
for raypoint in rays[shotnumber][raynumber]:
|
||||
outfile.writelines('%10f %10f %10f \n' % (raypoint[0], raypoint[1], raypoint[2]))
|
||||
outfile.write('%10f %10f %10f \n' % (raypoint[0], raypoint[1], raypoint[2]))
|
||||
|
||||
outfile.writelines('LINES %15d %15d\n' % (len(rays[shotnumber]), len(rays[shotnumber]) + nPoints))
|
||||
outfile.write('LINES %15d %15d\n' % (len(rays[shotnumber]), len(rays[shotnumber]) + nPoints))
|
||||
|
||||
# write indices
|
||||
# print("Writing indices to VTK file...")
|
||||
count = 0
|
||||
for raynumber in rays[shotnumber].keys():
|
||||
outfile.writelines('%d ' % (len(rays[shotnumber][raynumber])))
|
||||
outfile.write('%d ' % (len(rays[shotnumber][raynumber])))
|
||||
for index in range(len(rays[shotnumber][raynumber])):
|
||||
outfile.writelines('%d ' % (count))
|
||||
outfile.write('%d ' % (count))
|
||||
count += 1
|
||||
outfile.writelines('\n')
|
||||
outfile.write('\n')
|
||||
|
||||
|
||||
def _readVgrid(filename):
|
||||
@ -594,10 +766,10 @@ def addCheckerboard(spacing=10., pertubation=0.1, inputfile='vgrids.in',
|
||||
nPoints = nR * nTheta * nPhi
|
||||
|
||||
# write header for velocity grid file (in RADIANS)
|
||||
outfile.writelines('%10s %10s \n' % (1, 1))
|
||||
outfile.writelines('%10s %10s %10s\n' % (nR, nTheta, nPhi))
|
||||
outfile.writelines('%10s %10s %10s\n' % (dR, np.deg2rad(dTheta), np.deg2rad(dPhi)))
|
||||
outfile.writelines('%10s %10s %10s\n' % (sR, np.deg2rad(sTheta), np.deg2rad(sPhi)))
|
||||
outfile.write('%10s %10s \n' % (1, 1))
|
||||
outfile.write('%10s %10s %10s\n' % (nR, nTheta, nPhi))
|
||||
outfile.write('%10s %10s %10s\n' % (dR, np.deg2rad(dTheta), np.deg2rad(dPhi)))
|
||||
outfile.write('%10s %10s %10s\n' % (sR, np.deg2rad(sTheta), np.deg2rad(sPhi)))
|
||||
|
||||
spacR = correctSpacing(spacing, dR, '[meter], R')
|
||||
spacTheta = correctSpacing(_getAngle(spacing), dTheta, '[degree], Theta')
|
||||
@ -642,7 +814,7 @@ def addCheckerboard(spacing=10., pertubation=0.1, inputfile='vgrids.in',
|
||||
evenOdd = evenOddR * evenOddT * evenOddP * ampFactor
|
||||
velocity += evenOdd * pertubation * velocity
|
||||
|
||||
outfile.writelines('%10s %10s\n' % (velocity, decm))
|
||||
outfile.write('%10s %10s\n' % (velocity, decm))
|
||||
count += 1
|
||||
|
||||
progress = float(count) / float(nPoints) * 100
|
||||
@ -697,10 +869,10 @@ def addBox(x=(None, None), y=(None, None), z=(None, None),
|
||||
nPoints = nR * nTheta * nPhi
|
||||
|
||||
# write header for velocity grid file (in RADIANS)
|
||||
outfile.writelines('%10s %10s \n' % (1, 1))
|
||||
outfile.writelines('%10s %10s %10s\n' % (nR, nTheta, nPhi))
|
||||
outfile.writelines('%10s %10s %10s\n' % (dR, np.deg2rad(dTheta), np.deg2rad(dPhi)))
|
||||
outfile.writelines('%10s %10s %10s\n' % (sR, np.deg2rad(sTheta), np.deg2rad(sPhi)))
|
||||
outfile.write('%10s %10s \n' % (1, 1))
|
||||
outfile.write('%10s %10s %10s\n' % (nR, nTheta, nPhi))
|
||||
outfile.write('%10s %10s %10s\n' % (dR, np.deg2rad(dTheta), np.deg2rad(dPhi)))
|
||||
outfile.write('%10s %10s %10s\n' % (sR, np.deg2rad(sTheta), np.deg2rad(sPhi)))
|
||||
|
||||
count = 0
|
||||
for radius in rGrid:
|
||||
@ -722,7 +894,7 @@ def addBox(x=(None, None), y=(None, None), z=(None, None),
|
||||
if rFlag * thetaFlag * phiFlag is not 0:
|
||||
velocity = boxvelocity
|
||||
|
||||
outfile.writelines('%10s %10s\n' % (velocity, decm))
|
||||
outfile.write('%10s %10s\n' % (velocity, decm))
|
||||
count += 1
|
||||
|
||||
progress = float(count) / float(nPoints) * 100
|
||||
|
||||
@ -134,7 +134,8 @@ class SeisArray(object):
|
||||
if traceID2 < traceID1:
|
||||
direction = -1
|
||||
return direction
|
||||
print "Error: Same Value for traceID1 = %s and traceID2 = %s" % (traceID1, traceID2)
|
||||
err_msg = "Same Value for traceID1 = %s and traceID2 = %s" % (traceID1, traceID2)
|
||||
raise RuntimeError(err_msg)
|
||||
|
||||
def _checkCoordDirection(self, traceID1, traceID2, coordinate):
|
||||
'''
|
||||
@ -146,7 +147,8 @@ class SeisArray(object):
|
||||
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)
|
||||
err_msg = "Same Value for traceID1 = %s and traceID2 = %s" % (traceID1, traceID2)
|
||||
raise RuntimeError(err_msg)
|
||||
|
||||
def _interpolateMeanDistances(self, traceID1, traceID2, coordinate):
|
||||
'''
|
||||
@ -455,7 +457,7 @@ class SeisArray(object):
|
||||
|
||||
recx, recy, recz = self.getReceiverLists()
|
||||
nsrc = len(self.getSourceLocations())
|
||||
outfile.writelines('%s\n' % (len(zip(recx, recy, recz)) * nsrc))
|
||||
outfile.write('%s\n' % (len(zip(recx, recy, recz)) * nsrc))
|
||||
|
||||
for index in range(nsrc):
|
||||
for point in zip(recx, recy, recz):
|
||||
@ -463,10 +465,10 @@ class SeisArray(object):
|
||||
rad = - rz
|
||||
lat = self._getAngle(ry)
|
||||
lon = self._getAngle(rx)
|
||||
outfile.writelines('%15s %15s %15s\n' % (rad, lat, lon))
|
||||
outfile.writelines('%15s\n' % (1))
|
||||
outfile.writelines('%15s\n' % (index + 1))
|
||||
outfile.writelines('%15s\n' % (1))
|
||||
outfile.write('%15s %15s %15s\n' % (rad, lat, lon))
|
||||
outfile.write('%15s\n' % (1))
|
||||
outfile.write('%15s\n' % (index + 1))
|
||||
outfile.write('%15s\n' % (1))
|
||||
|
||||
outfile.close()
|
||||
|
||||
@ -506,22 +508,22 @@ class SeisArray(object):
|
||||
deltaPhi = abs(phiE - phiW) / float((nPhi - 1))
|
||||
|
||||
# write header for interfaces grid file (in RADIANS)
|
||||
outfile.writelines('%10s\n' % (nInterfaces))
|
||||
outfile.writelines('%10s %10s\n' % (nTheta + 2, nPhi + 2)) # +2 cushion nodes
|
||||
outfile.writelines('%10s %10s\n' % (np.deg2rad(deltaTheta), np.deg2rad(deltaPhi)))
|
||||
outfile.writelines('%10s %10s\n' % (np.deg2rad(thetaS - deltaTheta), np.deg2rad(phiW - deltaPhi)))
|
||||
outfile.write('%10s\n' % (nInterfaces))
|
||||
outfile.write('%10s %10s\n' % (nTheta + 2, nPhi + 2)) # +2 cushion nodes
|
||||
outfile.write('%10s %10s\n' % (np.deg2rad(deltaTheta), np.deg2rad(deltaPhi)))
|
||||
outfile.write('%10s %10s\n' % (np.deg2rad(thetaS - deltaTheta), np.deg2rad(phiW - deltaPhi)))
|
||||
|
||||
interface1 = self.interpolateTopography(nTheta, nPhi, thetaSN, phiWE, method=method)
|
||||
interface2 = self.interpolateOnRegularGrid(nTheta, nPhi, thetaSN, phiWE, -depthmax, method=method)
|
||||
|
||||
for point in interface1:
|
||||
z = point[2]
|
||||
outfile.writelines('%10s\n' % (z + R))
|
||||
outfile.write('%10s\n' % (z + R))
|
||||
|
||||
outfile.writelines('\n')
|
||||
outfile.write('\n')
|
||||
for point in interface2:
|
||||
z = point[2]
|
||||
outfile.writelines('%10s\n' % (z + R))
|
||||
outfile.write('%10s\n' % (z + R))
|
||||
|
||||
outfile.close()
|
||||
|
||||
@ -596,10 +598,10 @@ class SeisArray(object):
|
||||
deltaPhi = abs(phiE - phiW) / float(nPhi - 1)
|
||||
deltaR = abs(rbot - rtop) / float(nR - 1)
|
||||
|
||||
outfile.writelines('%10s %10s %10s\n' % (nR, nTheta, nPhi))
|
||||
outfile.writelines('%10s %10s %10s\n' % (deltaR, deltaTheta, deltaPhi))
|
||||
outfile.writelines('%10s %10s %10s\n' % (rtop, thetaS, phiW))
|
||||
outfile.writelines('%10s %10s\n' % refinement)
|
||||
outfile.write('%10s %10s %10s\n' % (nR, nTheta, nPhi))
|
||||
outfile.write('%10s %10s %10s\n' % (deltaR, deltaTheta, deltaPhi))
|
||||
outfile.write('%10s %10s %10s\n' % (rtop, thetaS, phiW))
|
||||
outfile.write('%10s %10s\n' % refinement)
|
||||
|
||||
outfile.close()
|
||||
|
||||
@ -708,10 +710,10 @@ class SeisArray(object):
|
||||
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' % (deltaR, np.deg2rad(deltaTheta), np.deg2rad(deltaPhi)))
|
||||
outfile.writelines(
|
||||
outfile.write('%10s %10s \n' % (1, 1))
|
||||
outfile.write('%10s %10s %10s\n' % (nR + 2, nTheta + 2, nPhi + 2))
|
||||
outfile.write('%10s %10s %10s\n' % (deltaR, np.deg2rad(deltaTheta), np.deg2rad(deltaPhi)))
|
||||
outfile.write(
|
||||
'%10s %10s %10s\n' % (rbot - deltaR, np.deg2rad(thetaS - deltaTheta), np.deg2rad(phiW - deltaPhi)))
|
||||
|
||||
surface = self.interpolateTopography(nTheta, nPhi, thetaSN, phiWE, method=method)
|
||||
@ -746,15 +748,16 @@ class SeisArray(object):
|
||||
vbot[index] - vtop[index]) + vtop[index]
|
||||
break
|
||||
if not (ztop[index]) >= depth > (zbot[index]):
|
||||
print(
|
||||
'ERROR in grid inputfile, could not find velocity for a z-value of %s in the inputfile' % (
|
||||
depth - topo))
|
||||
return
|
||||
err_msg = 'ERROR in grid inputfile, could not find velocity'
|
||||
'for a z-value of %s in the inputfile' % (depth - topo)
|
||||
raise ValueError(err_msg)
|
||||
count += 1
|
||||
if vel < 0:
|
||||
print(
|
||||
'ERROR, vel <0; z, topo, zbot, vbot, vtop:', depth, topo, zbot[index], vbot[index], vtop[index])
|
||||
outfile.writelines('%10s %10s\n' % (vel, decm))
|
||||
if not vel >= 0:
|
||||
err_msg = 'vel < 0; z, topo, zbot, vbot, vtop:',
|
||||
depth, topo, zbot[index], vbot[index], vtop[index]
|
||||
raise ValueError(err_msg)
|
||||
|
||||
outfile.write('%10s %10s\n' % (vel, decm))
|
||||
|
||||
progress = float(count) / float(nTotal) * 100
|
||||
self._update_progress(progress)
|
||||
@ -775,7 +778,7 @@ class SeisArray(object):
|
||||
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))
|
||||
recfile_out.write('%5s %15s %15s %15s\n' % (traceID, x, y, z))
|
||||
print "Exported coordinates for %s traces to file > %s" % (count, filename)
|
||||
recfile_out.close()
|
||||
|
||||
@ -895,11 +898,11 @@ class SeisArray(object):
|
||||
|
||||
# write header
|
||||
print("Writing header for VTK file...")
|
||||
outfile.writelines('# vtk DataFile Version 3.1\n')
|
||||
outfile.writelines('Surface Points\n')
|
||||
outfile.writelines('ASCII\n')
|
||||
outfile.writelines('DATASET POLYDATA\n')
|
||||
outfile.writelines('POINTS %15d float\n' % (nPoints))
|
||||
outfile.write('# vtk DataFile Version 3.1\n')
|
||||
outfile.write('Surface Points\n')
|
||||
outfile.write('ASCII\n')
|
||||
outfile.write('DATASET POLYDATA\n')
|
||||
outfile.write('POINTS %15d float\n' % (nPoints))
|
||||
|
||||
# write coordinates
|
||||
print("Writing coordinates to VTK file...")
|
||||
@ -908,23 +911,23 @@ class SeisArray(object):
|
||||
y = point[1]
|
||||
z = point[2]
|
||||
|
||||
outfile.writelines('%10f %10f %10f \n' % (x, y, z))
|
||||
outfile.write('%10f %10f %10f \n' % (x, y, z))
|
||||
|
||||
outfile.writelines('VERTICES %15d %15d\n' % (nPoints, 2 * nPoints))
|
||||
outfile.write('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.write('%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')
|
||||
# outfile.write('POINT_DATA %15d\n' %(nPoints))
|
||||
# outfile.write('SCALARS traceIDs int %d\n' %(1))
|
||||
# outfile.write('LOOKUP_TABLE default\n')
|
||||
|
||||
# # write traceIDs
|
||||
# print("Writing traceIDs to VTK file...")
|
||||
# for traceID in traceIDs:
|
||||
# outfile.writelines('%10d\n' %traceID)
|
||||
# outfile.write('%10d\n' %traceID)
|
||||
|
||||
outfile.close()
|
||||
print("Wrote %d points to file: %s" % (nPoints, filename))
|
||||
@ -944,11 +947,11 @@ class SeisArray(object):
|
||||
|
||||
# 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))
|
||||
outfile.write('# vtk DataFile Version 3.1\n')
|
||||
outfile.write('Receivers with traceIDs\n')
|
||||
outfile.write('ASCII\n')
|
||||
outfile.write('DATASET POLYDATA\n')
|
||||
outfile.write('POINTS %15d float\n' % (nPoints))
|
||||
|
||||
# write coordinates
|
||||
print("Writing coordinates to VTK file...")
|
||||
@ -957,23 +960,23 @@ class SeisArray(object):
|
||||
y = self._getYreceiver(traceID)
|
||||
z = self._getZreceiver(traceID)
|
||||
|
||||
outfile.writelines('%10f %10f %10f \n' % (x, y, z))
|
||||
outfile.write('%10f %10f %10f \n' % (x, y, z))
|
||||
|
||||
outfile.writelines('VERTICES %15d %15d\n' % (nPoints, 2 * nPoints))
|
||||
outfile.write('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.write('%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')
|
||||
outfile.write('POINT_DATA %15d\n' % (nPoints))
|
||||
outfile.write('SCALARS traceIDs int %d\n' % (1))
|
||||
outfile.write('LOOKUP_TABLE default\n')
|
||||
|
||||
# write traceIDs
|
||||
print("Writing traceIDs to VTK file...")
|
||||
for traceID in traceIDs:
|
||||
outfile.writelines('%10d\n' % traceID)
|
||||
outfile.write('%10d\n' % traceID)
|
||||
|
||||
outfile.close()
|
||||
print("Wrote %d receiver for to file: %s" % (nPoints, filename))
|
||||
@ -993,11 +996,11 @@ class SeisArray(object):
|
||||
|
||||
# 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))
|
||||
outfile.write('# vtk DataFile Version 3.1\n')
|
||||
outfile.write('Shots with shotnumbers\n')
|
||||
outfile.write('ASCII\n')
|
||||
outfile.write('DATASET POLYDATA\n')
|
||||
outfile.write('POINTS %15d float\n' % (nPoints))
|
||||
|
||||
# write coordinates
|
||||
print("Writing coordinates to VTK file...")
|
||||
@ -1006,23 +1009,23 @@ class SeisArray(object):
|
||||
y = self._getYshot(shotnumber)
|
||||
z = self._getZshot(shotnumber)
|
||||
|
||||
outfile.writelines('%10f %10f %10f \n' % (x, y, z))
|
||||
outfile.write('%10f %10f %10f \n' % (x, y, z))
|
||||
|
||||
outfile.writelines('VERTICES %15d %15d\n' % (nPoints, 2 * nPoints))
|
||||
outfile.write('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.write('%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')
|
||||
outfile.write('POINT_DATA %15d\n' % (nPoints))
|
||||
outfile.write('SCALARS shotnumbers int %d\n' % (1))
|
||||
outfile.write('LOOKUP_TABLE default\n')
|
||||
|
||||
# write shotnumber
|
||||
print("Writing shotnumbers to VTK file...")
|
||||
for shotnumber in shotnumbers:
|
||||
outfile.writelines('%10d\n' % shotnumber)
|
||||
outfile.write('%10d\n' % shotnumber)
|
||||
|
||||
outfile.close()
|
||||
print("Wrote %d sources to file: %s" % (nPoints, filename))
|
||||
|
||||
Loading…
Reference in New Issue
Block a user