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eigendisp.py
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eigendisp.py
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import numpy as np
import pyasdf, h5py
import cpsfile
import vmodel
import os
import warnings
import subprocess
def _write_txt(fname, outlon, outlat, outZ):
outArr=np.append(outlon, outlat)
outArr=np.append(outArr, outZ)
outArr=outArr.reshape((3,outZ.size))
outArr=outArr.T
np.savetxt(fname, outArr, fmt='%g')
return
class eigendispASDF(pyasdf.ASDFDataSet):
"""
An object for generating theoretical dispersion curve for input from SW4
"""
def sw4Vprofile(self, infname):
self.Vprofile = vmodel.vprofile(infname=infname)
self.Vprofile.HArr = self.Vprofile.HArr/1000.
index = self.Vprofile.dtypeArr==0
self.Vprofile.vsArr[index] = self.Vprofile.vsArr[index]/1000.
self.Vprofile.vpArr[index] = self.Vprofile.vpArr[index]/1000.
self.Vprofile.rhoArr[index] = self.Vprofile.rhoArr[index]/1000.
self.Vprofile.z0Arr[index] = self.Vprofile.z0Arr[index]/1000.
return
def cpsmodel1d(self):
self.model1d=vmodel.Model1d()
self.model1d.ak135()
return
def getdisp(self, workingdir, dt=0.1, N2=12 , nmodes=1, mode=0, hr=0., hs=0., deletemod=False, verbose=True, noq=False):
""" Get theoretical dispersion curves for all vertical profiles and save them to ASDF file
==========================================================================================
Input Parameters:
dt - time interval
N2 - npts = 2**N2
nmodes - number of modes
mode - mode index (0 for fundamental mode, 1 for 1st overtone ...)
hr - receiver depth
hs - source depth
workingdir - working directory for Computer Program for Seismology
deletemod - delete model files or not
==========================================================================================
"""
npts=2**N2
FNULL = open(os.devnull, 'w')
if mode+1 > nmodes:
nmodes=mode+1
warnings.warn('Mode required is not available, re-assign nmodes = mode+1 !', UserWarning, stacklevel=1)
if not os.path.isdir(workingdir):
os.makedirs(workingdir)
ak135mod=workingdir+'/ak135.mod'
tempCPS=workingdir+'/run_dispersion.sh'
try:
self.model1d.write(ak135mod)
except AttributeError:
self.cpsmodel1d()
self.model1d.write(ak135mod)
with open(tempCPS, 'wb') as f:
f.writelines('sprep96 -DT %f -NPTS %d -HR %f -HS %f -M %s -NMOD %d -R \n'
%(dt, npts, hr, hs, ak135mod, nmodes) )
if noq: f.writelines('sdisp96 \nsregn96 -NOQ \nsdpegn96 -R -U -ASC -TXT -PER \n')
else: f.writelines('sdisp96 \nsregn96 \nsdpegn96 -R -U -ASC -TXT -PER \n')
if verbose == False: subprocess.call(['bash', tempCPS], stdout=FNULL, stderr=subprocess.STDOUT)
else: subprocess.call(['bash', tempCPS])
os.remove('sdisp96.dat')
os.remove('sdisp96.ray')
os.remove('sregn96.egn')
os.remove('SREGN.ASC')
os.remove('SREGNU.PLT')
dispfile=cpsfile.DispFile('SREGN.TXT')
os.remove('SREGN.TXT')
os.remove(tempCPS)
if deletemod: os.remove(ak135mod)
dispcurve=dispfile.DispLst[mode]
dispcurve.InterpDisp()
auxArr=np.append(dispcurve.period, dispcurve.Vph)
auxArr=np.append(auxArr, dispcurve.Vgr)
if noq:
auxArr=auxArr.reshape(3, dispcurve.period.size )
# vs/dvs vp/dvp rho/drho Rmax Rmin z0 H x y dtype
parameters={'Rmax': 0., 'Rmin': 0., 'x': 0, 'y': 0, 'T': 0, 'Vph': 1, 'Vgr': 2}
else:
auxArr=np.append(auxArr, dispcurve.gamma)
auxArr=auxArr.reshape(4, dispcurve.period.size )
parameters={'Rmax': 0., 'Rmin': 0., 'x': 0, 'y': 0, 'T': 0, 'Vph': 1, 'Vgr': 2, 'gamma': 3}
self.add_auxiliary_data(data=auxArr, data_type='Disp', path='VP000', parameters=parameters)
Np=self.Vprofile.vsArr.size
############################################################################
# Get theoretical dispersion curve for each vertical profile
############################################################################
for i in xrange(Np):
model1d=self.model1d.copy()
if self.Vprofile.dtypeArr[i]==0:
model1d.addlayer(H=self.Vprofile.HArr[i], vs=self.Vprofile.vsArr[i], vp=self.Vprofile.vpArr[i],
rho=self.Vprofile.rhoArr[i], zmin=self.Vprofile.z0Arr[i])
tempmod=workingdir+'/temp_%03d' %i +'.mod'
model1d.write(tempmod)
else:
z1=self.Vprofile.z0Arr[i]
z2=self.Vprofile.HArr[i] + z1
if self.Vprofile.vsArr[i] !=0.:
model1d.perturb(dm=self.Vprofile.vsArr[i], zmin=z1, zmax=z2, datatype='vs')
if self.Vprofile.vpArr[i] !=0.:
model1d.perturb(dm=self.Vprofile.vpArr[i], zmin=z1, zmax=z2, datatype='vp')
if self.Vprofile.rhoArr[i] !=0.:
model1d.perturb(dm=self.Vprofile.rhoArr[i], zmin=z1, zmax=z2, datatype='rho')
tempmod=workingdir+'/temp_%03d' %i +'.mod'
model1d.write(tempmod)
with open(tempCPS, 'wb') as f:
f.writelines('sprep96 -DT %f -NPTS %d -HR %f -HS %f -M %s -NMOD %d -R \n'
%(dt, npts, hr, hs, tempmod, nmodes) )
if noq: f.writelines('sdisp96 \nsregn96 -NOQ \nsdpegn96 -R -U -ASC -TXT -PER \n')
else: f.writelines('sdisp96 \nsregn96 \nsdpegn96 -R -U -ASC -TXT -PER \n')
if verbose == False:
subprocess.call(['bash', tempCPS], stdout=FNULL, stderr=subprocess.STDOUT)
else:
subprocess.call(['bash', tempCPS])
os.remove('sdisp96.dat')
os.remove('sdisp96.ray')
os.remove('sregn96.egn')
os.remove('SREGN.ASC')
os.remove('SREGNU.PLT')
dispfile=cpsfile.DispFile('SREGN.TXT')
os.remove('SREGN.TXT')
# os.remove(tempCPS)
if deletemod: os.remove(tempmod)
dispcurve=dispfile.DispLst[mode]
dispcurve.InterpDisp()
auxArr=np.append(dispcurve.period, dispcurve.Vph)
auxArr=np.append(auxArr, dispcurve.Vgr)
if noq:
auxArr=auxArr.reshape(3, dispcurve.period.size )
# vs/dvs vp/dvp rho/drho Rmax Rmin z0 H x y dtype
parameters={'Rmax': self.Vprofile.RmaxArr[i], 'Rmin': self.Vprofile.RminArr[i], 'x': self.Vprofile.xArr[i],
'y': self.Vprofile.yArr[i], 'T': 0, 'Vph': 1, 'Vgr': 2}
else:
auxArr=np.append(auxArr, dispcurve.gamma)
auxArr=auxArr.reshape(4, dispcurve.period.size )
parameters={'Rmax': self.Vprofile.RmaxArr[i], 'Rmin': self.Vprofile.RminArr[i], 'x': self.Vprofile.xArr[i],
'y': self.Vprofile.yArr[i], 'T': 0, 'Vph': 1, 'Vgr': 2, 'gamma': 3}
path='VP%03d' %(i+1)
self.add_auxiliary_data(data=auxArr, data_type='Disp', path=path, parameters=parameters)
FNULL.close()
return
class eigendispHDF5(h5py.File):
"""
An object for generating theoretical dispersion curve for input from SES3D model
"""
def readh5model(self, infname, groupname, minlat=-999, maxlat=999, minlon=-999, maxlon=999, dlat=None, dlon=None, maxdepth=None, vsmin=None):
"""
Read hdf5 model
================================================================================================
Input parameters:
infname - input filename
groupname - group name
minlon, maxlon - defines study region, default is to read corresponding data from hdf5 file
minlat, maxlat -
maxdepth - maximum depth to be truncated
================================================================================================
"""
header={'H': 0, 'vs':1, 'vp':2, 'rho':3, 'Qs':4}
if vsmin!=None:
vpmin=0.9409+2.0947*vsmin-0.8206*vsmin**2+0.2683*vsmin**3-0.0251*vsmin**4
rhomin=1.6612*vpmin-0.4721*vpmin**2+0.0671*vpmin**3-0.0043*vpmin**4+0.000106*vpmin**5
MDataset = h5py.File(infname)
# get latitude/longitude information
if minlat < MDataset[groupname].attrs['minlat']: minlat = MDataset[groupname].attrs['minlat']
if maxlat > MDataset[groupname].attrs['maxlat']: maxlat = MDataset[groupname].attrs['maxlat']
if minlon < MDataset[groupname].attrs['minlon']: minlon = MDataset[groupname].attrs['minlon']
if maxlon > MDataset[groupname].attrs['maxlon']: maxlon = MDataset[groupname].attrs['maxlon']
if dlon==None or dlat ==None:
dlon = MDataset[groupname].attrs['dlon']; dlat = MDataset[groupname].attrs['dlat']
self.attrs.create(name = 'dlon', data=dlon, dtype='f')
self.attrs.create(name = 'dlat', data=dlat, dtype='f')
self.attrs.create(name = 'minlat', data=minlat, dtype='f')
self.attrs.create(name = 'maxlat', data=maxlat, dtype='f')
self.attrs.create(name = 'minlon', data=minlon, dtype='f')
self.attrs.create(name = 'maxlon', data=maxlon, dtype='f')
# determine number of subvolumes, max depth and whether to interpolate or not
if maxdepth == None:
dz = MDataset[groupname].attrs['dz']
depth = MDataset[groupname].attrs['depth']
depthArr = MDataset[groupname].attrs['depthArr']
else:
dz = MDataset[groupname].attrs['dz']
depth = MDataset[groupname].attrs['depth']
depthArr = MDataset[groupname].attrs['depthArr']
if maxdepth > depth[-1]: raise ValueError('maximum depth is too large!')
depth = depth [ np.where(depth<maxdepth)[0] ]
bdz = dz[depth.size]
if depth.size == 0 and maxdepth % bdz != 0:
maxdepth = int( maxdepth / bdz ) * bdz
print 'actual max depth:', maxdepth, 'km'
elif ( maxdepth - depth[-1]) % bdz !=0:
maxdepth = int( ( maxdepth - depth[-1]) / bdz ) * bdz + depth[-1]
print 'actual max depth:', maxdepth, 'km'
depth = np.append(depth, maxdepth)
dz = dz[:depth.size]
##############################
# Get verfical profile information
##############################
# generate node array
i=0
for depb, dzb in zip(depth, dz):
if i==0:
blockdep = depthArr[depthArr<depb]
nodeArr = blockdep - dzb/2.
else:
dep0 = depth[i-1]
blockdep = depthArr[(depthArr<depb)*(depthArr>dep0)]
nodeArr = np.append(nodeArr, blockdep - dzb/2.)
if i == depth.size-1: nodeArr = np.append(nodeArr, depb)
i+=1
## Getting data
if MDataset[groupname].attrs['isblock']:
group = MDataset[groupname]
else:
try: group = MDataset[groupname+'_block']
except:
group = MDataset[groupname]
warnings.warn('Input model is NOT block model! ', UserWarning, stacklevel=1)
latarr = minlat + np.arange( (maxlat-minlat)/dlat + 1)*dlat
lonarr = minlon + np.arange( (maxlon-minlon)/dlon + 1)*dlon
Nlayer = nodeArr.size-1
Harr = nodeArr[1:] - nodeArr[:-1]
outgroup = self.create_group( name = '3Dmodel' )
for hkey in header.keys(): outgroup.attrs.create(name = hkey, data=header[hkey], dtype='i')
for lat in latarr:
for lon in lonarr:
name='%g_%g' %(lon, lat)
inProf = group[name][...]
HProf = inProf[:Nlayer, :]
HProf[:, 0] = Harr
if vsmin != None:
vsArr = HProf[:, header['vs']]
vsArr[vsArr<vsmin] = vsmin
HProf[:, header['vs']] = vsArr
vpArr = HProf[:, header['vp']]
vpArr[vpArr<vpmin] = vpmin
HProf[:, header['vp']] = vpArr
rhoArr = HProf[:, header['rho']]
rhoArr[rhoArr<rhomin] = rhomin
HProf[:, header['rho']] = rhoArr
dset = outgroup.create_dataset( name=name, shape=HProf.shape, data=HProf)
dset.attrs.create(name = 'lon', data=lon, dtype='f')
dset.attrs.create(name = 'lat', data=lat, dtype='f')
return
def getdisp(self, workingdir, dt=0.1, N2=12 , nmodes=1, mode=0, hr=0., hs=0., deletemod=False, verbose=True, noq=True):
""" Get theoretical dispersion curves for all vertical profiles and save them to ASDF file
==========================================================================================
Input Parameters:
dt - time interval
N2 - npts = 2**N2
nmodes - number of modes
mode - mode index (0 for fundamental mode, 1 for 1st overtone ...)
hr - receiver depth
hs - source depth
workingdir - working directory for Computer Program for Seismology
deletemod - delete model files or not
==========================================================================================
"""
ingroup = self['3Dmodel']
header={'H': 0, 'vs':1, 'vp':2, 'rho':3, 'Qs':4}
npts=2**N2
FNULL = open(os.devnull, 'w')
if mode+1 > nmodes:
nmodes=mode+1
warnings.warn('Mode required is not available, re-assign nmodes = mode+1 !', UserWarning, stacklevel=1)
if not os.path.isdir(workingdir): os.makedirs(workingdir)
minlat = self.attrs['minlat']
maxlat = self.attrs['maxlat']
minlon = self.attrs['minlon']
maxlon = self.attrs['maxlon']
dlon = self.attrs['dlon']; dlat = self.attrs['dlat']
latarr = minlat + np.arange( (maxlat-minlat)/dlat + 1)*dlat
lonarr = minlon + np.arange( (maxlon-minlon)/dlon + 1)*dlon
tempCPS=workingdir+'/run_dispersion.sh'
############################################################################
# Get theoretical dispersion curve for each vertical profile
############################################################################
outgroup= self.create_group( name = 'phase_vel' )
for lat in latarr:
for lon in lonarr:
name='%g_%g' %(lon, lat)
VProf = ingroup[name][...]
model1d=vmodel.Model1d()
QpArr=3/4.*VProf[:,header['Qs']]*(VProf[:,header['vp']]/VProf[:,header['vs']])**2
model1d.getmodel(modelname=name, HArr=VProf[:,header['H']], VpArr=VProf[:,header['vp']], VsArr=VProf[:,header['vs']],
rhoArr=VProf[:,header['rho']], QpArr=QpArr, QsArr=VProf[:,header['Qs']])
model1d.check_model()
tempmod=workingdir+'/temp_'+ name +'.mod'
model1d.write(tempmod)
with open(tempCPS, 'wb') as f:
f.writelines('sprep96 -DT %f -NPTS %d -HR %f -HS %f -M %s -NMOD %d -R \n'
%(dt, npts, hr, hs, tempmod, nmodes) )
if noq: f.writelines('sdisp96 \nsregn96 -NOQ \nsdpegn96 -R -U -ASC -TXT -PER \n')
else: f.writelines('sdisp96 \nsregn96 \nsdpegn96 -R -U -ASC -TXT -PER \n')
if verbose == False: subprocess.call(['bash', tempCPS], stdout=FNULL, stderr=subprocess.STDOUT)
else: subprocess.call(['bash', tempCPS])
os.remove('sdisp96.dat')
os.remove('sdisp96.ray')
os.remove('sregn96.egn')
os.remove('SREGN.ASC')
os.remove('SREGNU.PLT')
dispfile=cpsfile.DispFile('SREGN.TXT')
os.remove('SREGN.TXT')
os.remove(tempCPS)
if deletemod: os.remove(tempmod)
dispcurve=dispfile.DispLst[mode]
dispcurve.InterpDisp()
auxArr=np.append(dispcurve.period, dispcurve.Vph)
auxArr=np.append(auxArr, dispcurve.Vgr)
if noq:
auxArr=auxArr.reshape(3, dispcurve.period.size )
# # vs/dvs vp/dvp rho/drho Rmax Rmin z0 H x y dtype
# parameters={'Rmax': self.Vprofile.RmaxArr[i], 'Rmin': self.Vprofile.RminArr[i], 'x': self.Vprofile.xArr[i],
# 'y': self.Vprofile.yArr[i], 'T': 0, 'Vph': 1, 'Vgr': 2}
else:
auxArr=np.append(auxArr, dispcurve.gamma)
auxArr=auxArr.reshape(4, dispcurve.period.size )
# parameters={'Rmax': self.Vprofile.RmaxArr[i], 'Rmin': self.Vprofile.RminArr[i], 'x': self.Vprofile.xArr[i],
# 'y': self.Vprofile.yArr[i], 'T': 0, 'Vph': 1, 'Vgr': 2, 'gamma': 3}
dset = outgroup.create_dataset( name=name, shape=auxArr.shape, data=auxArr)
dset.attrs.create(name = 'lon', data=lon, dtype='f')
dset.attrs.create(name = 'lat', data=lat, dtype='f')
FNULL.close()
return
def get_2D_map(self, outdir, pers=np.arange(10., 105., 5.), outtype='ph'):
minlat = self.attrs['minlat']
maxlat = self.attrs['maxlat']
minlon = self.attrs['minlon']
maxlon = self.attrs['maxlon']
dlon = self.attrs['dlon']; dlat = self.attrs['dlat']
latarr = minlat + np.arange( (maxlat-minlat)/dlat + 1)*dlat
lonarr = minlon + np.arange( (maxlon-minlon)/dlon + 1)*dlon
ingroup = self['phase_vel']
for per in pers:
outfname = outdir+'/'+outtype+'V_%g.lst' %per
outlat=np.array([])
outlon=np.array([])
outVarr=np.array([])
for lat in latarr:
for lon in lonarr:
name='%g_%g' %(lon, lat)
indisp = ingroup[name][...]
outlat = np.append(outlat, lat)
if lon < 0: lon+=360
outlon = np.append(outlon, lon)
inpers = indisp[0,:]
inphV = indisp[1,:]
ingrV = indisp[2,:]
if outtype=='ph': outV = inphV[inpers==per]
elif outtype=='gr': outV = ingrV[inpers==per]
outVarr=np.append(outVarr, outV)
_write_txt(fname=outfname, outlat=outlat, outlon=outlon, outZ=outVarr)
return