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signalprocessing.py
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signalprocessing.py
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import os
import numpy as np
import matplotlib.pyplot as plt
import sys
from pylab import *
from nptdms import TdmsFile
from TDMS_Functions import *
from filter import *
import scipy.fft as ft
from scipy import interpolate, signal
def get_hhmmss(time):
hh=int((time-np.mod(time,3600))/3600)
time2=time-hh*3600
mm=int((time2-np.mod(time2,60))/60)
ss=time2-mm*60
return hh,mm,ss
def get_seconds(time):
hh,mm,ss=get_hhmmss_str(time)
return seconds
def hhmmss_seconds(hh,mm,ss):
seconds=hh*3600+mm*60+ss
return seconds
def get_hours(time):
hh,mm,ss=get_hhmmss_str(time)
seconds=hhmmss_seconds(hh,mm,ss)
hours=seconds/3600
return hours
def get_hhmmss_str(time):
hh,mm,ss=time.split(':')
hh,mm,ss=(int(hh),int(mm),float(ss))
return hh,mm,ss
def yymmdd(date,delimiter='/',flg='int'):
tmp=date.split(delimiter)
yy,mm,dd=(tmp[0],tmp[1],tmp[2])
if flg=='int':
yy,mm,dd=(int(yy),int(mm),int(dd))
else:
yy,mm,dd=yy.strip(),mm.strip(),dd.strip()
return yy,mm,dd
def hhmmss(time,delimiter=':',flg='int'):
if delimiter=='':
hh=time[0:2]
mm=time[2:4]
ss=time[4:]
else:
tmp=time.split(delimiter)
hh,mm,ss=(tmp[0],tmp[1],tmp[2])
if flg=='int':
hh,mm,ss=(int(hh),int(mm),int(float(ss)))
elif flg=='float':
hh,mm,ss=(float(hh),float(mm),float(ss))
else:
hh,mm,ss=hh.strip(),mm.strip(),ss.strip()
return hh,mm,ss
def get_sdate_stime(filename):
sdate,stime=filename[9:17],filename[18:28]
return sdate,stime
def get_filesize(filename):
return os.path.getsize(filename)
def get_nsamples(filesize,nchannels,flg='sgy',bytepersample=4):
if flg=='sgy':
localnsample=int(((filesize-3600)/nchannels-240)/bytepersample)
else:
localnsample=(filesize/nchannels/bytepersample)
return localnsample
def add_time(ini,addtime):
hh=ini[0]+addtime[0]
mm=ini[1]+addtime[1]
ss=ini[2]+addtime[2]
if ss>=60:
ss=ss-60
mm=mm+1
if mm>=60:
mm=mm-60
hh=hh+1
# if hh>=24:
# comment='Next day'
return hh,mm,ss
class Model:
def __init__(self):
# print('Sccessfully defined')
self.set_xlabel('Variables')
self.figname=False
self.filename=False
self.header=np.zeros(120)
def set_filename(self,filename):
self.filename=filename
def set_xlabel(self,label):
self.xlabel=label
def set_data(self,data):
self.data=copy.deepcopy(data)
def calc_pressure(self):
value=gravity*imega*self.data
return value
def calc_percentile(self):
self.p10=np.percentile(self.data,10)
self.p50=np.percentile(self.data,50)
self.p90=np.percentile(self.data,90)
def calc_randn(self, seed, mean, sigma,nrand):
np.random.seed(seed)
self.data=np.random.normal(mean,sigma,(nrand))
def calc_invlognormal(self):
data=(1.0/(1.0+np.exp(-1.0*self.data)))
return data
class Tosoku:
def __init__(self):
self.figname=False
self.filename=False
self.EW=np.ndarray(0)
self.NS=np.ndarray(0)
self.VZ=np.ndarray(0)
def load_variables(self,filepath):
DUMMYFILE='/mnt/d/Research/OpticSensing/2019_03_Mobara/市原地表加速度計データ/'+'Dummy1.asc'
num_headers=10
self.header={'filepath':filepath}
if os.path.exists(filepath):
localfilepath=filepath
else:
localfilepath=DUMMYFILE
f=open(localfilepath)
for i in range(num_headers):
line=f.readline().rstrip('\r\n')
propertyname=line[:20]
value=line[20:]
self.header[propertyname]=value
self.nsamples=int(self.header['Number of Data '])
self.nt=self.nsamples
temp=self.header['Trigger Time '].split()
self.date=temp[0]
self.time=temp[1]
self.dt=1.0/float(self.header['Sampling Freq(Hz) '])
self.tini=0.0
self.tend=(self.nt-1)*self.dt+self.tini
self.tt=np.arange(self.tini,self.tend+self.dt,self.dt)
tempdata=f.readlines()
self.data=np.ndarray(self.nsamples)
for i in range(self.nsamples):
self.data[i]=tempdata[i].rstrip('\r\n')
f.close
def set_3comp(self,filehead):
filepath1=filehead+'.01.asc'
filepath2=filehead+'.02.asc'
filepath3=filehead+'.03.asc'
self.load_variables(filepath1);self.EW=self.data
self.load_variables(filepath2);self.NS=self.data
self.load_variables(filepath3);self.VZ=self.data
def add_3comp(self,extra):
self.EW=np.append(self.EW,extra.EW)
self.NS=np.append(self.NS,extra.NS)
self.VZ=np.append(self.VZ,extra.VZ)
def process_day(self,day):
for i in range(0,24):
shour='{:02d}'.format(i)
for j in range(0,6):
smin='{:01d}'.format(j)
localpathhead=datapath+day+'/2019'+day+shour+smin+'000.203.t3w'
# print(localpathhead)
tmp=Tosoku();tmp.set_3comp(localpathhead);self.add_3comp(tmp)
def subsample(self):
self.EWsub10=self.EW[::10]
self.NSsub10=self.NS[::10]
self.VZsub10=self.VZ[::10]
self.EWsub100=self.EW[::100]
self.NSsub100=self.NS[::100]
self.VZsub100=self.VZ[::100]
def export(self,filepath):
self.EW.astype('float32').tofile(filepath+'EW')
self.NS.astype('float32').tofile(filepath+'NS')
self.VZ.astype('float32').tofile(filepath+'VZ')
def reset_header_day(self):
self.nt=len(self.EW)
self.tini=0.0
self.dt=1.0/100.0
self.tend=(self.nt-1)*self.dt+self.tini
self.tend10=(self.nt/10-1)*self.dt*10+self.tini
self.tend100=(self.nt/100-1)*self.dt*100+self.tini
self.tt=np.arange(self.tini,self.tend+self.dt,self.dt)
self.ttsub10=np.arange(self.tini,self.tend10+self.dt*10,self.dt*10)
self.ttsub100=np.arange(self.tini,self.tend100+self.dt*100,self.dt*100)
def view_sub10(self,tlim,title="Title",lentime=60,absymin=0.1):
tmin=tlim[0]
tmax=tlim[1]
plt.rcParams["font.size"] = 14
ymin=-1*absymin;ymax=absymin
index=np.where(self.VZsub10==0.0000)
self.VZsub10[index]=np.nan
self.NSsub10[index]=np.nan
self.EWsub10[index]=np.nan
self.tth=self.ttsub10/3600
itmin=np.argmax(self.tth>=tmin)
itmax=np.argmax(self.tth>=tmax)
fig=plt.figure(figsize=(16,8))
ax1=fig.add_subplot(3,1,1)
ax1.set_title(title)
ax1.plot(self.tth[itmin:itmax],zero_mean(self.EWsub10[itmin:itmax]))
# ax.plot([time2,time2],[ymin,ymax],'r--')
ax1.set_ylabel('EW')
ax1.set_xlim(tmin,tmax)
ax1.set_ylim(ymin,ymax)
ax2=fig.add_subplot(3,1,2)
ax2.plot(self.tth[itmin:itmax],zero_mean(self.NSsub10[itmin:itmax]))
# ax.plot([time2,time2],[ymin,ymax],'r--')
ax2.set_ylabel('NS')
ax2.set_xlim(tmin,tmax)
ax2.set_ylim(ymin,ymax)
ax3=fig.add_subplot(3,1,3)
ax3.plot(self.tth[itmin:itmax],zero_mean(self.VZsub10[itmin:itmax]))
# ax3.plot([time2,time2],[ymin,ymax],'r--')
ax3.set_ylabel('Vertical')
ax3.set_xlabel('Hour')
ax3.set_xlim(tmin,tmax)
ax3.set_ylim(ymin,ymax)
return (ax1,ax2,ax3,fig)
def view(self,tlim,title="Title",lentime=60,absymin=0.1):
tmin=tlim[0]
tmax=tlim[1]
plt.rcParams["font.size"] = 14
ymin=-1*absymin;ymax=absymin
index=np.where(self.VZ==0.0000)
self.VZ[index]=np.nan
self.NS[index]=np.nan
self.EW[index]=np.nan
self.tth=self.tt/3600
itmin=np.argmax(self.tth>=tmin)
itmax=np.argmax(self.tth>=tmax)
fig=plt.figure(figsize=(16,8))
ax1=fig.add_subplot(3,1,1)
ax1.set_title(title)
ax1.plot(self.tth[itmin:itmax],zero_mean(self.EW[itmin:itmax]))
# ax.plot([time2,time2],[ymin,ymax],'r--')
ax1.set_ylabel('EW')
ax1.set_xlim(tmin,tmax)
ax1.set_ylim(ymin,ymax)
ax2=fig.add_subplot(3,1,2)
ax2.plot(self.tth[itmin:itmax],zero_mean(self.NS[itmin:itmax]))
# ax.plot([time2,time2],[ymin,ymax],'r--')
ax2.set_ylabel('NS')
ax2.set_xlim(tmin,tmax)
ax2.set_ylim(ymin,ymax)
ax3=fig.add_subplot(3,1,3)
ax3.plot(self.tth[itmin:itmax],zero_mean(self.VZ[itmin:itmax]))
# ax3.plot([time2,time2],[ymin,ymax],'r--')
ax3.set_ylabel('Vertical')
ax3.set_xlabel('Hour')
ax3.set_xlim(tmin,tmax)
ax3.set_ylim(ymin,ymax)
return (ax1,ax2,ax3,fig)
def zero_mean(indata):
meanval=np.nanmean(indata)
outdata=indata-meanval
return outdata
class Events():
def __init__(self):
self.file='false'
def epidistance(self,event):
R = 6373.0
lat1 = radians(self.loc[0])
lon1 = radians(self.loc[1])
lat2 = radians(event.loc[0])
lon2 = radians(event.loc[1])
dlon = lon2 - lon1
dlat = lat2 - lat1
a = np.sin(dlat / 2)**2 + np.cos(lat1) * np.cos(lat2) * np.sin(dlon / 2)**2
c = 2 * np.arctan2(np.sqrt(a), np.sqrt(1 - a))
distance = R * c
return distance
def distance(self,event):
epidist=self.epidistance(event)
distance=np.sqrt(epidist**2+(self.dep-event.dep)**2)
return distance
class Parosci:
def __init__(self):
self.figname=False
self.filename=False
self.EW=np.ndarray(0)
self.NS=np.ndarray(0)
self.VZ=np.ndarray(0)
self.temp=np.ndarray(0)
self.oneg=np.ndarray(0)
def load_variables(self,filepath):
DUMMYFILE='/mnt/d/Research/OpticSensing/2019_03_Mobara/市原地表加速度計データ/'+'Dummy1.asc'
num_headers=0
self.header={'filepath':filepath}
if os.path.exists(filepath):
localfilepath=filepath
else:
localfilepath=DUMMYFILE
data = np.loadtxt(localfilepath,delimiter=",",
dtype=[('col1','S24'),('col2','S5'),('col3','f8'),('col4','f8'),
('col5','f8'),('col6','f8'),('col7','f8')])
nsample=data.size
self.EW=np.ndarray(nsample)
self.NS=np.ndarray(nsample)
self.VZ=np.ndarray(nsample)
self.temp=np.ndarray(nsample)
self.oneg=np.ndarray(nsample)
for i in range(nsample):
self.EW[i]=data[i][2]
self.NS[i]=data[i][3]
self.VZ[i]=data[i][4]
self.temp[i]=data[i][5]
self.oneg[i]=data[i][6]
self.nsamples=nsample
self.nt=self.nsamples
self.dt=0.1
self.tini=0.0
self.tend=(self.nt-1)*self.dt+self.tini
self.tt=np.arange(self.tini,self.tend+self.dt,self.dt)
def add_3comp(self,extra):
self.EW=np.append(self.EW,extra.EW)
self.NS=np.append(self.NS,extra.NS)
self.VZ=np.append(self.VZ,extra.VZ)
def add_temp1G(self,extra):
self.temp=np.append(self.temp,extra.temp)
self.oneg=np.append(self.oneg,extra.oneg)
def process_day(self,day='03-26'):
for i in range(0,24):
shour='{:02d}'.format(i)
# for j in range(0,6):
# smin='{:01d}'.format(j)
localpathhead=datapath+'2019-'+day+'_'+shour+'_log.txt'
# print(localpathhead)
tmp=Parosci();tmp.load_variables(localpathhead);self.add_3comp(tmp),self.add_temp1G(tmp)
def subsample(self):
self.EWsub10=self.EW[::10]
self.NSsub10=self.NS[::10]
self.VZsub10=self.VZ[::10]
self.tempsub10=self.temp[::10]
self.onegsub10=self.oneg[::10]
self.EWsub100=self.EW[::100]
self.NSsub100=self.NS[::100]
self.VZsub100=self.VZ[::100]
self.tempsub100=self.temp[::100]
self.onegsub100=self.oneg[::100]
self.EWsub500=self.EW[::500]
self.NSsub500=self.NS[::500]
self.VZsub500=self.VZ[::500]
self.tempsub500=self.temp[::500]
self.onegsub500=self.oneg[::500]
self.EWsub1000=self.EW[::1000]
self.NSsub1000=self.NS[::1000]
self.VZsub1000=self.VZ[::1000]
self.tempsub1000=self.temp[::1000]
self.onegsub1000=self.oneg[::1000]
def export(self,filepath):
self.EW.astype('float32').tofile(filepath+'EW')
self.NS.astype('float32').tofile(filepath+'NS')
self.VZ.astype('float32').tofile(filepath+'VZ')
self.temp.astype('float32').tofile(filepath+'TEMP')
self.oneg.astype('float32').tofile(filepath+'1G')
def reset_header_day(self):
self.nt=len(self.EW)
self.tini=0.0
self.dt=1.0/10.0
self.tend=(self.nt-1)*self.dt+self.tini
self.tend10=(self.nt/10-1)*self.dt*10+self.tini
self.tend100=(self.nt/100-1)*self.dt*100+self.tini
self.tend500=(self.nt/500-1)*self.dt*500+self.tini
self.tend1000=(self.nt/1000-1)*self.dt*1000+self.tini
self.tt=np.arange(self.tini,self.tend+self.dt,self.dt)
self.ttsub10=np.arange(self.tini,self.tend10+self.dt*10,self.dt*10)
self.ttsub100=np.arange(self.tini,self.tend100+self.dt*100,self.dt*100)
self.ttsub500=np.arange(self.tini,self.tend500+self.dt*500,self.dt*500)
self.ttsub1000=np.arange(self.tini,self.tend1000+self.dt*1000,self.dt*1000)
def view_sub10(self,tlim,title="Title",lentime=60,absymin=0.1):
tmin=tlim[0]
tmax=tlim[1]
plt.rcParams["font.size"] = 14
ymin=-1*absymin;ymax=absymin
index=np.where(self.VZsub10==0.0000)
self.VZsub10[index]=np.nan
self.NSsub10[index]=np.nan
self.EWsub10[index]=np.nan
self.tth=self.ttsub10/3600
itmin=np.argmax(self.tth>=tmin)
itmax=np.argmax(self.tth>=tmax)
fig=plt.figure(figsize=(16,8))
ax1=fig.add_subplot(3,1,1)
ax1.set_title(title)
ax1.plot(self.tth[itmin:itmax],zero_mean(self.EWsub10[itmin:itmax]))
# ax.plot([time2,time2],[ymin,ymax],'r--')
ax1.set_ylabel('EW')
ax1.set_xlim(tmin,tmax)
ax1.set_ylim(ymin,ymax)
ax2=fig.add_subplot(3,1,2)
ax2.plot(self.tth[itmin:itmax],zero_mean(self.NSsub10[itmin:itmax]))
# ax.plot([time2,time2],[ymin,ymax],'r--')
ax2.set_ylabel('NS')
ax2.set_xlim(tmin,tmax)
ax2.set_ylim(ymin,ymax)
ax3=fig.add_subplot(3,1,3)
ax3.plot(self.tth[itmin:itmax],zero_mean(self.VZsub10[itmin:itmax]))
ax3.plot([time2,time2],[ymin,ymax],'r--')
ax3.set_ylabel('Vertical')
ax3.set_xlabel('Hour')
ax3.set_xlim(tmin,tmax)
ax3.set_ylim(ymin,ymax)
return (ax1,ax2,ax3,fig)
def view(self,tlim,title="Title",lentime=60,absymin=0.1):
tmin=tlim[0]
tmax=tlim[1]
plt.rcParams["font.size"] = 14
ymin=-1*absymin;ymax=absymin
index=np.where(self.VZ==0.0000)
self.VZ[index]=np.nan
self.NS[index]=np.nan
self.EW[index]=np.nan
self.tth=self.tt/3600
itmin=np.argmax(self.tth>=tmin)
itmax=np.argmax(self.tth>=tmax)
fig=plt.figure(figsize=(16,8))
ax1=fig.add_subplot(3,1,1)
ax1.set_title(title)
ax1.plot(self.tth[itmin:itmax],zero_mean(self.EW[itmin:itmax]))
# ax.plot([time2,time2],[ymin,ymax],'r--')
ax1.set_ylabel('EW')
ax1.set_xlim(tmin,tmax)
ax1.set_ylim(ymin,ymax)
ax2=fig.add_subplot(3,1,2)
ax2.plot(self.tth[itmin:itmax],zero_mean(self.NS[itmin:itmax]))
# ax.plot([time2,time2],[ymin,ymax],'r--')
ax2.set_ylabel('NS')
ax2.set_xlim(tmin,tmax)
ax2.set_ylim(ymin,ymax)
ax3=fig.add_subplot(3,1,3)
ax3.plot(self.tth[itmin:itmax],zero_mean(self.VZ[itmin:itmax]))
# ax3.plot([time2,time2],[ymin,ymax],'r--')
ax3.set_ylabel('Vertical')
ax3.set_xlabel('Hour')
ax3.set_xlim(tmin,tmax)
ax3.set_ylim(ymin,ymax)
return (ax1,ax2,ax3,fig)
segystruct1='iiiiiiihhh'+'hiiiiiiiih'+'hiiiihhhhh'+'hhhhhhhhhh' #
segystruct2='hhhhhhhhhh'+'hhhhhhhhhh'+'hhhhhhhhhh'+'hiiiiihhii'
segystruct3='ihhhhhhhhi'+'i'
segystruct=segystruct1+segystruct2+segystruct3
class Fibres:
def __init__(self):
# print('Sccessfully defined')
self.figname=False
self.filename=False
def load_data(self,filename,nchannel,nsample):
test=Model()
test.set_filename(filename)
fd=open(test.filename,'rb')
data=np.fromfile(fd,dtype = np.dtype('float32'))
self.data=np.reshape(data,(nchannel,nsample))
self.data=self.data.T# Outer mo
self.nsamples=nsample
self.nchannels=nchannel
def load_data_tdms(self,filepath):
self.file=TdmsFile(filepath)
self.groupname=self.file.groups()[0]
self.channels=self.file.group_channels(self.groupname)
self.nchannels=len(self.channels)
self.nt=len(self.channels[0].data)
self.header=self.file.object()
# self.init_variables()
self.data=np.ndarray((self.nt,self.nchannels))
for i in range(self.nchannels):
self.data[::,i]=self.channels[i].data
# self.info()
def read_data(self,filename,nchannel=15700,nsample=30000,sgy=False,endian='big'):
bytestrh=240
bytesfloats=4
bytesblock=nsample*bytesfloats+bytestrh # =6244
fin=open(filename,'rb')
if sgy==True:
fin.seek(3600)
tmpval=[Model() for x in range(nchannel)]
for i in range(nchannel):
tmp=fin.read(bytestrh)
if endian=='big':
tmpval[i]=np.fromfile(fin,dtype='>f',count=nsample)
else:
tmpval[i]=np.fromfile(fin,dtype='<f',count=nsample)
fin.close()
self.data=np.array(tmpval).T
self.nsamples=nsample
self.nchannels=nchannel
#return val
def init_para(self,temp):
self.dt=temp.dt
self.tini=temp.tini
self.tend=self.tini+(self.nsamples-1)*self.dt
self.tt=np.arange(self.tini,self.tend+self.dt,self.dt)
self.tt=self.tt[0:self.nsamples]
self.nt=self.nsamples
self.zini=temp.zini
self.dz=temp.dz
self.zend=self.zini+(self.nchannels-1)*self.dz
self.zz=np.arange(self.zini,self.zend+self.dz,self.dz)
self.zz=self.zz[0:self.nchannels]
def view_sparse_as(self,ax,subsampling=10,clip=0.01,color='gray',myabs=-1):
# clip=0.01
if myabs<0:
scaler=np.maximum(np.abs(np.min(self.data)),np.abs(np.max(self.data)))
vmin=-scaler*clip
vmax=scaler*clip
else:
vmin=-myabs
vmax=myabs
nt=self.nt
nchannel=self.nchannels
# xx3,zz3=np.meshgrid(np.linspace(0,(nt),nt),np.linspace(0,(nchannel),nchannel,endpoint=True))
xx3,zz3=np.meshgrid(self.tt[0:-1:subsampling],self.zz)
# fig=plt.figure(figsize=(6,4))
# ax=fig.add_subplot(1,1,1)
cax=plt.pcolormesh(xx3,zz3,self.data[0:-1:subsampling,::].T,cmap=color,vmin=vmin,vmax=vmax)
ax.invert_yaxis()
ax.set_xlabel('Time [sec]')
ax.set_ylabel('Distance [m]')
return ax
def view_sparse_as_vertical(self,ax,subsampling=10,clip=0.01,color='gray',myabs=-1):
# clip=0.01
if myabs<0:
scaler=np.maximum(np.abs(np.min(self.data)),np.abs(np.max(self.data)))
vmin=-scaler*clip
vmax=scaler*clip
else:
vmin=-myabs
vmax=myabs
nt=self.nt
nchannel=self.nchannels
# xx3,zz3=np.meshgrid(np.linspace(0,(nt),nt),np.linspace(0,(nchannel),nchannel,endpoint=True))
zz3,xx3=np.meshgrid(self.zz,self.tt[0:-1:subsampling])
# fig=plt.figure(figsize=(6,4))
# ax=fig.add_subplot(1,1,1)
cax=plt.pcolormesh(zz3,xx3,self.data[0:-1:subsampling,::],cmap=color,vmin=vmin,vmax=vmax)
ax.invert_yaxis()
ax.set_ylabel('Time [sec]')
ax.set_xlabel('Distance [m]')
ax.xaxis.set_ticks_position('top')
ax.xaxis.set_label_position('top')
return ax
def set_zz(self,base,index):
self.zz=np.linspace(base.zz[index],base.zz[index+self.nchannels],self.nchannels,endpoint=True)
def set_para(self,dt,tini,dz,zini):
self.dt=dt
self.tini=tini
self.tend=self.tini+(self.nsamples-1)*self.dt
self.tt=np.arange(self.tini,self.tend+self.dt,self.dt)
self.tt=self.tt[0:self.nsamples]
self.nt=self.nsamples
self.zini=zini
self.dz=dz
self.zend=self.zini+(self.nchannels-1)*self.dz
self.zz=np.arange(self.zini,self.zend+self.dz,self.dz)
self.zz=self.zz[0:self.nchannels]
def shift_utc(date,time,shift=-9):
year,month,day=date[0],date[1],date[2]
hh,mm,ss=time[0],time[1],time[2]
nhh=hh+shift
if nhh<0:
nday=day-1
nhh=nhh+24
else:
nday=day
if nday<0:
nmonth=month-1
if nmonth in [1,3,5,7,8,10,12]:
nday=nday+31
elif nmonth==2:
nday=nday+28
else:
nday=nday+30
else:
nmonth=month
return (year,nmonth,nday),(nhh,mm,ss)
def shift_time(date,time,shift):
year,month,day=date[0],date[1],date[2]
hh,mm,ss=time[0],time[1],time[2]
sfhh,sfmm,sfss=shift[0],shift[1],shift[2]
nhh,nmm,nss=hh+sfhh,mm+sfmm,ss+sfss
if nss<0:
nmm=nmm-1
nss=nss+60
elif nss>60:
nmm=nmm+1
nss=nss-60
if nmm<0:
nhh=nhh-1
nmm=nmm+60
elif nmm>60:
nhh=nhh+1
nmm=nmm-60
if nhh<0:
nday=day-1
nhh=nhh+24
elif nhh>24:
nhh=nhh-24
nday=day+1
else:
nday=day
if nday<0:
nmonth=month-1
if nmonth in [1,3,5,7,8,10,12]:
nday=nday+31
elif nmonth==2:
nday=nday+28
else:
nday=nday+30
else:
nmonth=month
return (year,nmonth,nday),(nhh,nmm,nss)
def copy_Fibres(old):
import copy
slx=copy.deepcopy(old)
return slx
def slice_spacechunk(slxin,ar_dep):
ch1=np.argmax(slxin.zz>=ar_dep[0])
ch2=np.argmax(slxin.zz>=ar_dep[1])
slx=copy_Fibres(slxin)
slx.nchannels=ch2-ch1
slx.zz=np.zeros(slx.nchannels)
slx.zz=slxin.zz[ch1:ch2]
slx.data=slxin.data[::,ch1:ch2]
return slx
def slice_timechunk(slxin,ar_tt):
ch1=np.argmax(slxin.tt>=ar_tt[0])
ch2=np.argmax(slxin.tt>=ar_tt[1])
slx=copy_Fibres(slxin)
slx.nsamples=int(ch2-ch1)
slx.tt=np.zeros(slx.nsamples)
slx.tt=slxin.tt[ch1:ch2]
slx.data=slxin.data[ch1:ch2,::]
return slx
def denoising(impactor2020,ar_dep):
index1=np.argmax(impactor2020.zz>ar_dep[0])
index2=np.argmax(impactor2020.zz>ar_dep[1])
noise=np.average(impactor2020.data[::,index1:index2],axis=1)
stripenoise=np.zeros_like(impactor2020.data)
size1,size2=impactor2020.data.shape
for i in range(size2):
stripenoise[::,i]=noise[:]
return impactor2020.data-stripenoise
def denoising_out(impactor2020,noise,ar_dep):
index1=np.argmax(noise.zz>ar_dep[0])
index2=np.argmax(noise.zz>ar_dep[1])
noise=np.average(noise.data[::,index1:index2],axis=1)
stripenoise=np.zeros_like(impactor2020.data)
size1,size2=impactor2020.data.shape
for i in range(size2):
stripenoise[::,i]=noise[:]
return impactor2020.data-stripenoise
def mycp(obj):
import copy
return copy.deepcopy(obj)
# def load_tdms_as_Fibers(outpath):
# slx2020=Tdms()
# slx2020.load_variables(outpath)
# slx=Fibres()
# slx.nsamples=mycp(slx2020.nt)
# slx.nchannels=mycp(slx2020.nchannels)
# slx.nt=mycp(slx2020.nt)
# slx.zz=mycp(slx2020.zz)
# slx.data=mycp(slx2020.data)
# slx.tt=mycp(slx2020.tt)
# return slx
def load_segy_as_Fibers(segyfile,tdmsfile):
slx2020=Tdms()
slx2020.load_variables(tdmsfile)
slx=Fibres()
slx.nsamples=mycp(slx2020.nt)
slx.nchannels=mycp(slx2020.nchannels)
slx.nt=mycp(slx2020.nt)
print('inside SEGY loading function',slx.nsamples,slx.nchannels)
slx.zz=mycp(slx2020.zz)
# slx.data=mycp(slx2020.data)
slx.read_data(segyfile,slx.nchannels,slx.nsamples,sgy=True,endian='big')
print(segyfile)
print('Inside, data shape=',slx.data.shape)
slx.tt=mycp(slx2020.tt)
return slx
def init_zz(slx):
slx.zz=slx.zz-slx.zz[0]
def apply_bpf(indata,lowcut,highcut,fs,order):
len1,len2=indata.shape
outdata=np.zeros_like(indata)
for i in range(len2):
outdata[:,i]=butter_bandpass_filter(indata[:,i],lowcut,highcut,fs,order)
return outdata
def apply_depth_correction(slx,helicalcorr=0.881505039883044):
slx.zz=slx.zz*helicalcorr # sws3ST[1].zz[-1]/sws3ST[1].zz[-1]
def bc880_event(filepath,ar_denoise=(-90,-20),order=5,hicut=40,locut=2,
depthinit=True,denoiseflg=True,bpfflg=True,
fileformat='tdms',temptdms=False):
event1023=Model()
#filepath='/mnt/h/20200210/connected whole_UTC_20200212_103700.000.tdms'
if fileformat=='tdms':
event1023.entire=load_tdms_as_Fibers(filepath)
print(event1023.entire.data.shape)
elif fileformat=='segy':
event1023.entire=load_segy_as_Fibers(filepath,tdmsfile=temptdms)
if denoiseflg:
event1023.entire.data=denoising(event1023.entire,ar_denoise)
# event1023.hwc500=slice_spacechunk(event1023.entire,hwc500)
# event1023.stc500=slice_spacechunk(event1023.entire,stc500)
# event1023.hwc250=slice_spacechunk(event1023.entire,hwc250)
# event1023.stc250=slice_spacechunk(event1023.entire,stc250)
event1023.bc880=slice_spacechunk(event1023.entire,bc880)
# event1023.hwcSurf=slice_spacechunk(event1023.entire,hwcSurf)
# event1023.stcSurf=slice_spacechunk(event1023.entire,stcSurf)
if bpfflg:
event1023.bc880.data=apply_bpf(event1023.bc880.data,locut,hicut,1000,order=5)
# event1023.hwc500.data=apply_bpf(event1023.hwc500.data,locut,hicut,1000,order=5)
# event1023.hwc250.data=apply_bpf(event1023.hwc250.data,locut,hicut,1000,order=5)
# event1023.stc500.data=apply_bpf(event1023.stc500.data,locut,hicut,1000,order=5)
# event1023.stc250.data=apply_bpf(event1023.stc250.data,locut,hicut,1000,order=5)
# event1023.hwcSurf.data=apply_bpf(event1023.hwcSurf.data,locut,hicut,1000,order=5)
# event1023.stcSurf.data=apply_bpf(event1023.stcSurf.data,locut,hicut,1000,order=5)
if depthinit:
init_zz(event1023.bc880)
# init_zz(event1023.hwc250)
# apply_depth_correction(event1023.hwc250)
# init_zz(event1023.stc250)
# init_zz(event1023.bc880)
return event1023
def normalize(x, method='MinMaxScaler'):
"""
Normalize waveform
INPUT:
x: Data (2D array)
method: Method options: 'MinMaxScaler', 'LogNorm', 'PowerTransformer', 'StandardScaler'
OUTPUT:
Normalized 2D array
"""
if method=='MinMaxScaler':
# Note that most min-max scaling algorithms (including Sklearn) only
# scale from 0 to 1. The following has been adapted for negative input
# such that it would scale from -1 to 1.
xmax = np.amax(np.abs(x))
range = 1
return np.array([[float(val) / xmax * range for val in row] for row in x])
if method=='LogNorm':
return np.array([[np.log10(val) if val>0 else -np.log10(np.abs(val)) for val in row] for row in x])
else:
# Scikit-Learn transformers
from sklearn.preprocessing import PowerTransformer, StandardScaler
if method=='StandardScaler':
scale = StandardScaler()
if method=='PowerTransformer':
scale = PowerTransformer()
return scale.fit_transform(x)
def normalize1D(trace, method='MinMaxScaler'):
"""
Normalize 1D waveform, or trace
NOTE: The other function "normalize" is for 2D data. This function has been
adjusted for 1D data (or single-channel).
INPUT:
trace: Trace data (1D array)
method: Methods of data transformation. See "help(normalize)"
OUTPUT:
Normalized trace (1D array)
"""
tr = np.reshape(trace, (-1,1))
tr_norm = normalize(tr, method)
tr_norm = np.ndarray.flatten(tr_norm)
return tr_norm
def difference(waveform1, waveform2):
"""
Calculate difference between two waveforms
INPUT:
waveform: Waveform data. Can be used to compare two different types of
DAS, here the STC (straight cable), HWC (helically wound cable),
or BC (behind casing).
NOTE: waveform 1 must be inside waveform 2.
OUTPUT:
dif: Waveform difference
"""
data1, data2 = waveform1.data, waveform2.data
x, y = waveform2.zz, waveform2.tt
xnew, ynew = waveform1.zz, waveform1.tt
f = interpolate.interp2d(x, y, data2)
# Interpolate event 2 using (t,z) of event 1
data2_i = f(xnew, ynew)
# Now both events have same shape, take difference
dif = data2_i - data1
return dif
def fftSpectrum(x, fs=1/0.001, window=1, output='as', output_unit='true_amp',
plot=True, flim=(None,None)):
"""
Calculate and amplitude spectrum
INPUT:
x: Trace data (1D array)
fs: Sampling rate (=1/sampling interval)
window: Rolling window to smooth spectrum. Default is 1 (no smoothening)
output: 'fft' for amplitude spectrum, 'ps' for power spectrum, 'psd' for
power spectral density. Default is 'fft'.
output_unit: 'true_amp' for true amplitude, 'db' for decibel. Default is
'true_amp'
plot: Option to plot spectrum. Default is True.
flim: Range of frequencies to plot. Default is None (up to Nyquist frequency)
OUTPUT:
frqs: Frequencies (1D array, Hz)
frqAmp: Amplitude (1D array)
Plot of spectrum
"""
spectrum = ft.fft(x)
frqBins = int(spectrum.size/2)
frqAmp = np.absolute(spectrum[:frqBins])
# Rolling average to smooth spectrum
rolling = lambda x, w: np.convolve(x, np.ones(w), 'same') / w
frqAmp = rolling(frqAmp, window)
# Frequencies of interest
NyquistFrq = fs/2.0 # the Nyquist frequency
frqs = np.linspace(0, NyquistFrq, num=frqBins)
if output=='as':
frqAmp = frqAmp
if output=='ps':
nt = len(x)
frqAmp = 2*(np.abs(frqAmp)**2) / (nt**2)
if output=='psd':
nt, dt = len(x), 1/fs
frqAmp = 2*(np.abs(frqAmp)**2) / (nt**2) * dt * nt
if output_unit=='true_amp':
frqAmp = frqAmp
if output_unit=='db':
frqAmp = 10*np.log10(frqAmp)
if plot==True:
if output=='as':
title = 'Amplitude Spectrum'
xscale = 'linear'
if output=='ps':
title = 'Power Spectrum'
xscale = 'log'
if output=='psd':
title = 'Power Spectral Density'
xscale = 'log'
if output_unit=='true_amp':
unit = ''
if output_unit=='db':
unit = '[db]'
plt.plot(frqs, frqAmp, 'r')
plt.xscale(xscale)
plt.xlabel('Frequency [Hz]')
plt.ylabel('Amplitude '+unit)
plt.xlim(flim)
plt.title(title)
return frqs, frqAmp
def cutData1D(t, data, cut_trace):
"""
Cut 1D data along time axis
INPUT:
t: Time samples (1D array)
data: Trace data (1D array)
cut_trace: Cut window in seconds; tuple of (start_time, end_time)
OUTPUT: