def mskLooks(inps):
inWidth = getWidth(inps.input + '.xml')
inLength = getLength(inps.input + '.xml')
outWidth = int(inWidth / inps.rlks)
outLength = int(inLength / inps.alks)
#look_msk infile outfile nrg nrlks nalks
#run program here
cmd = '$INSAR_ZERODOP_BIN/look_msk {} {} {} {} {}'.format(
inps.input, inps.output, inWidth, inps.rlks, inps.alks)
runCmd(cmd)
#get xml file for interferogram
image = isceobj.createImage()
accessMode = 'read'
dataType = 'BYTE'
bands = 1
scheme = 'BIL'
width = outWidth
image.initImage(inps.output,
accessMode,
width,
dataType,
bands=bands,
scheme=scheme)
descr = 'Radar shadow-layover mask. 1 - Radar Shadow. 2 - Radar Layover. 3 - Both.'
image.addDescription(descr)
image.renderHdr()
def intLooks(inps):
inWidth = getWidth(inps.input + '.xml')
inLength = getLength(inps.input + '.xml')
outWidth = int(inWidth / inps.rlks)
outLength = int(inLength / inps.alks)
#run program here
cmd = '$INSAR_ZERODOP_BIN/look {} {} {} {} {} 4 0 0'.format(
inps.input, inps.output, inWidth, inps.rlks, inps.alks)
runCmd(cmd)
#get xml file for interferogram
create_xml(inps.output, outWidth, outLength, 'int')
def coherence(inps, method="phase_gradient"):
#logger.info("Calculating Coherence")
#get width from the header file of input interferogram
width = getWidth(inps.intf + '.xml')
# Initialize the amplitude
ampImage = isceobj.createAmpImage()
ampImage.setFilename(inps.amp)
ampImage.setWidth(width)
ampImage.setAccessMode('read')
ampImage.createImage()
#ampImage = self.insar.getResampOnlyAmp().copy(access_mode='read')
# Initialize the flattened inteferogram
intImage = isceobj.createIntImage()
intImage.setFilename(inps.intf)
intImage.setWidth(width)
intImage.setAccessMode('read')
intImage.createImage()
# Create the coherence image
#there is no coherence image in the isceobj/Image
cohImage = isceobj.createOffsetImage()
cohImage.setFilename(inps.cor)
cohImage.setWidth(width)
cohImage.setAccessMode('write')
cohImage.createImage()
cor = Correlation()
cor.configure()
cor.wireInputPort(name='interferogram', object=intImage)
cor.wireInputPort(name='amplitude', object=ampImage)
cor.wireOutputPort(name='correlation', object=cohImage)
cor.windowSize = inps.winsize
cohImage.finalizeImage()
intImage.finalizeImage()
ampImage.finalizeImage()
try:
CORRELATION_METHOD[method](cor)
except KeyError:
print("Unrecognized correlation method")
sys.exit(1)
pass
return None
def ampLooks(inps):
inWidth = getWidth(inps.input + '.xml')
inLength = getLength(inps.input + '.xml')
outWidth = int(inWidth / inps.rlks)
outLength = int(inLength / inps.alks)
#run it
#cmd = 'echo -e "{}\n{}\n{} {}\n{} {}\n" | $INSAR_ZERODOP_BIN/rilooks'.format(inps.input, inps.output, inWidth, inLength, inps.rlks, inps.alks)
#it seems that echo does not require -e in this situation, strange
cmd = '$INSAR_ZERODOP_BIN/look {} {} {} {} {} 4 1 0'.format(
inps.input, inps.output, inWidth, inps.rlks, inps.alks)
runCmd(cmd)
#get xml file for amplitude image
create_xml(inps.output, outWidth, outLength, 'amp')
def hgtLooks(inps):
inWidth = getWidth(inps.input + '.xml')
inLength = getLength(inps.input + '.xml')
outWidth = int(inWidth / inps.rlks)
outLength = int(inLength / inps.alks)
#look_msk infile outfile nrg nrlks nalks
#run program here
cmd = '$INSAR_ZERODOP_BIN/look {} {} {} {} {} 3 0 1'.format(
inps.input, inps.output, inWidth, inps.rlks, inps.alks)
runCmd(cmd)
#get xml
image = isceobj.createImage()
accessMode = 'read'
dataType = 'DOUBLE'
width = outWidth
image.initImage(inps.output, accessMode, width, dataType)
image.addDescription('Pixel-by-pixel height in meters.')
image.renderHdr()
parser.print_help()
sys.exit(1)
else:
return parser.parse_args()
if __name__ == '__main__':
inps = cmdLineParse()
with open(inps.mframe, 'rb') as fid:
masterFrame = pickle.load(fid)
slantRangePixelSpacing = inps.rlks * 0.5 * SPEED_OF_LIGHT / masterFrame.rangeSamplingRate
radarWavelength = masterFrame.radarWavelegth
intfWidth = getWidth(inps.intf + '.xml')
intfLength = getLength(inps.intf + '.xml')
#run it
cmd = "$INSAR_ZERODOP_BIN/flat {} {} {} {} {}".format(
inps.intf, inps.rgoff, inps.dintf, slantRangePixelSpacing,
radarWavelength)
#print("{}".format(cmd))
runCmd(cmd)
#get xml file for interferogram
create_xml(inps.dintf, intfWidth, intfLength, 'int')
#./flat.py -m 20130927.slc.pck -i 20130927-20141211.int -r 20130927-20141211_rg.off -d diff_20130927-20141211.int
parser.add_argument('-alks', dest='alks', type=int, default=1,
help = 'number of azimuth looks of the interferograms and amplitudes. default: 1')
if len(sys.argv) <= 1:
print('')
parser.print_help()
sys.exit(1)
else:
return parser.parse_args()
if __name__ == '__main__':
inps = cmdLineParse()
masterWidth = getWidth(inps.master + '.xml')
masterLength = getLength(inps.master + '.xml')
slaveWidth = getWidth(inps.slave + '.xml')
slaveLength = getLength(inps.slave + '.xml')
if inps.offsetfile != None:
refinedOffsets = readOffset(inps.offsetfile)
if inps.slaveframe == None:
slaveFrameName = inps.slave + '.pck'
else:
slaveFrameName = inps.slaveframe
with open(slaveFrameName, 'rb') as f:
help = '(output) amplitudes of master and slave SLCs')
if len(sys.argv) <= 1:
print('')
parser.print_help()
sys.exit(1)
else:
return parser.parse_args()
if __name__ == '__main__':
inps = cmdLineParse()
#get information
masterWidth = getWidth(inps.master + '.xml')
masterLength = getLength(inps.master + '.xml')
#run interf
cmd = "$INSAR_ZERODOP_BIN/interf {} {} {} {} {}".format(inps.master, inps.slave, inps.intf, inps.amp, masterWidth)
#print("{}".format(cmd))
runCmd(cmd)
#get xml file for interferogram
create_xml(inps.intf, masterWidth, masterLength, 'int')
#get xml file for amplitude image
create_xml(inps.amp, masterWidth, masterLength, 'amp')
#./interf.py -m 20130927.slc -s 20141211.slc -i 20130927-20141211.int -a 20130927-20141211.amp
default=1,
help='azimuth looks')
if len(sys.argv) <= 1:
print('')
parser.print_help()
sys.exit(1)
else:
return parser.parse_args()
if __name__ == '__main__':
inps = cmdLineParse()
ampWidth = getWidth(inps.amp + '.xml')
ampLength = getLength(inps.amp + '.xml')
lookAmpWidth = int(ampWidth / inps.rlks)
lookAmpLength = int(ampLength / inps.alks)
simWidth = getWidth(inps.sim + '.xml')
simLength = getLength(inps.sim + '.xml')
lookSimWidth = int(simWidth / inps.rlks)
lookSimLength = int(simLength / inps.alks)
#prepare parameters for ampcor
lookAmp = 'float_{}rlks_{}alks.amp'.format(inps.rlks, inps.alks)
lookSim = 'float_{}rlks_{}alks.sim'.format(inps.rlks, inps.alks)
offsetFile = 'ampsim.off'
numAzimuth = 30 #number of matches in azimuth
print('')
parser.print_help()
sys.exit(1)
else:
return parser.parse_args()
if __name__ == '__main__':
inps = cmdLineParse()
#ratio = 1.0e10
ratio = inps.ratio
print('master and slave scaling ratio: {}'.format(ratio))
width = getWidth(inps.inf + '.xml')
length = getLength(inps.inf + '.xml')
#read master burst
inf = np.fromfile(inps.inf, dtype=np.complex64).reshape(length, width)
amp = np.fromfile(inps.amp, dtype=np.complex64).reshape(length, width)
flag = (inf != 0) * (amp.real != 0) * (amp.imag != 0)
nvalid = np.sum(flag, dtype=np.float64)
mpwr1 = np.sqrt(
np.sum(amp.real * amp.real * flag, dtype=np.float64) / nvalid)
mpwr2 = np.sqrt(
np.sum(amp.imag * amp.imag * flag, dtype=np.float64) / nvalid)
amp.real = amp.real / ratio
default=1,
help='azimuth looks of the image')
if len(sys.argv) <= 1:
print('')
parser.print_help()
sys.exit(1)
else:
return parser.parse_args()
if __name__ == '__main__':
inps = cmdLineParse()
inWidth = getWidth(inps.inimage + '.xml')
inLength = getLength(inps.inimage + '.xml')
outWidth = inWidth
outLength = inLength
with open(inps.aff) as f:
lines = f.readlines()
f.close
i = 0
for linex in lines:
if 'Affine Matrix ' in linex:
m11 = float(lines[i + 2].split()[0])
m12 = float(lines[i + 2].split()[1])
m21 = float(lines[i + 3].split()[0])
m22 = float(lines[i + 3].split()[1])
def cal_offset(mframeFile, sframeFile, DEMfile):
#master frame
with open(mframeFile, 'rb') as f:
mframe = pickle.load(f)
#slave frame
with open(sframeFile, 'rb') as f:
sframe = pickle.load(f)
#dem
demImage = isceobj.createDemImage()
demImage.load(DEMfile + '.xml')
demImage.setAccessMode('read')
latFile = 'tmp.lat'
lonFile = 'tmp.lon'
hgtFile = 'tmp.hgt'
losFile = 'tmp.los'
incFile = 'tmp.inc'
mskFile = 'tmp.msk'
rgoffFile = 'range.off'
azoffFile = 'azimuth.off'
##########################################################################
#offset calculation parameters
masterOffsetFromStart = int(mframe.getNumberOfLines() /
2) #number of lines
masterNumberOfLines = 100 #number of lines
slaveExtentionLines = 100000 #number of lines
##########################################################################
#run topo
runTopo(mframe,
demImage,
latName=latFile,
lonName=lonFile,
hgtName=hgtFile,
losName=losFile,
incName=incFile,
mskName=mskFile,
offsetFromStart=masterOffsetFromStart,
numOfLines=masterNumberOfLines)
latImage = isceobj.createImage()
latImage.load(latFile + '.xml')
latImage.setAccessMode('read')
lonImage = isceobj.createImage()
lonImage.load(lonFile + '.xml')
lonImage.setAccessMode('read')
hgtImage = isceobj.createDemImage()
hgtImage.load(hgtFile + '.xml')
hgtImage.setAccessMode('read')
#run geo: extend file length by 2 * extentionLines, to make sure it overlaps with master
runGeo2rdr(sframe,
latImage,
lonImage,
hgtImage,
rgoffName=rgoffFile,
azoffName=azoffFile,
extentionLines=slaveExtentionLines)
#get range and azimuth offsets
width = getWidth(rgoffFile + '.xml')
length = getLength(rgoffFile + '.xml')
rgoff = np.fromfile(rgoffFile, dtype=np.float32,
count=length * width).reshape(length, width)
azoff = np.fromfile(azoffFile, dtype=np.float32,
count=length * width).reshape(length, width)
#remove BAD_VALUE = -999999.0 as defined in geo2rdr.f90
# http://docs.scipy.org/doc/numpy-1.10.0/reference/generated/numpy.mean.html
# In single precision, mean can be inaccurate
# np.mean(a, dtype=np.float64)
rgoffm = np.mean(rgoff[np.nonzero(rgoff != -999999.0)], dtype=np.float64)
azoffm = np.mean(
azoff[np.nonzero(azoff != -999999.0)],
dtype=np.float64) - masterOffsetFromStart - slaveExtentionLines
print('\noffsets from geometrical calculation:')
print('++++++++++++++++++++++++++++++++++++++')
print('range offset: {}'.format(rgoffm))
print('azimuth offset: {}\n'.format(azoffm))
#tidy up
os.remove(latFile)
os.remove(latFile + '.xml')
os.remove(latFile + '.vrt')
os.remove(lonFile)
os.remove(lonFile + '.xml')
os.remove(lonFile + '.vrt')
os.remove(hgtFile)
os.remove(hgtFile + '.xml')
os.remove(hgtFile + '.vrt')
os.remove(losFile)
os.remove(losFile + '.xml')
os.remove(losFile + '.vrt')
os.remove(incFile)
os.remove(incFile + '.xml')
os.remove(incFile + '.vrt')
os.remove(mskFile)
os.remove(mskFile + '.xml')
os.remove(mskFile + '.vrt')
os.remove(rgoffFile)
os.remove(rgoffFile + '.xml')
os.remove(rgoffFile + '.vrt')
os.remove(azoffFile)
os.remove(azoffFile + '.xml')
os.remove(azoffFile + '.vrt')
return [rgoffm, azoffm]
help=
'coherence threshhold for phase difference calculation. Default: 0.1')
if len(sys.argv) <= 1:
print('')
parser.print_help()
sys.exit(1)
else:
return parser.parse_args()
if __name__ == '__main__':
inps = cmdLineParse()
width = getWidth(inps.unwl + '.xml')
length = getLength(inps.unwl + '.xml')
unwl = (np.fromfile(inps.unwl,
dtype=np.float32).reshape(length * 2,
width))[1:length * 2:2, :]
unwu = (np.fromfile(inps.unwu,
dtype=np.float32).reshape(length * 2,
width))[1:length * 2:2, :]
cor = (np.fromfile(inps.cor,
dtype=np.float32).reshape(length * 2,
width))[1:length * 2:2, :]
ccl = np.fromfile(inps.ccl, dtype=np.int8).reshape(length, width)
ccu = np.fromfile(inps.ccu, dtype=np.int8).reshape(length, width)
def runUnwrap(inps,
costMode=None,
initMethod=None,
defomax=None,
initOnly=None):
if costMode is None:
costMode = 'DEFO'
if initMethod is None:
initMethod = 'MST'
if defomax is None:
defomax = 4.0
if initOnly is None:
initOnly = False
#get earth radius and altitude using master's orbit
with open(inps.mframe, 'rb') as f:
mframe = pickle.load(f)
azti = 1.0 / mframe.PRF
tmid = mframe.getSensingStart() + datetime.timedelta(
seconds=azti * (mframe.getNumberOfLines() / 2.0))
orbit = mframe.getOrbit()
peg = orbit.interpolateOrbit(tmid, method='hermite')
refElp = Planet(pname='Earth').ellipsoid
llh = refElp.xyz_to_llh(peg.getPosition())
hdg = orbit.getHeading(tmid)
#change to the following after updated to the newest version of isce
#hdg = orbit.getENUHeading(tmid)
refElp.setSCH(llh[0], llh[1], hdg)
earthRadius = refElp.pegRadCur
altitude = llh[2]
wrapName = inps.inf
unwrapName = inps.unw
corrfile = inps.cor
width = getWidth(wrapName + '.xml')
wavelength = mframe.getInstrument().getRadarWavelength()
rangeLooks = inps.rlks
azimuthLooks = inps.alks
#calculate azimuth resolution and pixel size
azres = mframe.platform.antennaLength / 2.0
vel = np.sqrt(peg.velocity[0] * peg.velocity[0] +
peg.velocity[1] * peg.velocity[1] +
peg.velocity[2] * peg.velocity[2])
hgt = np.sqrt(peg.position[0] * peg.position[0] +
peg.position[1] * peg.position[1] +
peg.position[2] * peg.position[2])
azimuthPixelSpacing = earthRadius / hgt * vel * azti
azfact = azres / azimuthPixelSpacing
#calculate range resolution and pixel size
rBW = mframe.instrument.pulseLength * mframe.instrument.chirpSlope
rgres = abs(SPEED_OF_LIGHT / (2.0 * rBW))
slantRangePixelSpacing = 0.5 * SPEED_OF_LIGHT / mframe.rangeSamplingRate
rngfact = rgres / slantRangePixelSpacing
print('azfact: {}, rngfact: {}'.format(azfact, rngfact))
corrLooks = azimuthLooks * rangeLooks / (azfact * rngfact)
maxComponents = 20
snp = Snaphu()
snp.setInitOnly(initOnly) # follow
snp.setInput(wrapName)
snp.setOutput(unwrapName)
snp.setWidth(width)
snp.setCostMode(costMode) # follow
snp.setEarthRadius(earthRadius)
snp.setWavelength(wavelength)
snp.setAltitude(altitude)
snp.setCorrfile(corrfile)
snp.setInitMethod(initMethod) # follow
snp.setCorrLooks(corrLooks)
snp.setMaxComponents(maxComponents)
snp.setDefoMaxCycles(defomax) # follow
snp.setRangeLooks(rangeLooks)
snp.setAzimuthLooks(azimuthLooks)
#snp.setCorFileFormat('FLOAT_DATA')
snp.prepare()
snp.unwrap()
######Render XML
outImage = isceobj.Image.createUnwImage()
outImage.setFilename(unwrapName)
outImage.setWidth(width)
outImage.setAccessMode('read')
outImage.renderVRT()
outImage.createImage()
outImage.finalizeImage()
outImage.renderHdr()
#####Check if connected components was created
if snp.dumpConnectedComponents:
connImage = isceobj.Image.createImage()
connImage.setFilename(unwrapName + '.conncomp')
#At least one can query for the name used
#self._insar.connectedComponentsFilename = unwrapName+'.conncomp'
connImage.setWidth(width)
connImage.setAccessMode('read')
connImage.setDataType('BYTE')
connImage.renderVRT()
connImage.createImage()
connImage.finalizeImage()
connImage.renderHdr()
return
def runFilter(inps):
logger.info("Applying power-spectral filter")
#get width from the header file of input interferogram
width = getWidth(inps.intf + '.xml')
length = getLength(inps.intf + '.xml')
if shutil.which('psfilt1') != None:
cmd = "psfilt1 {int} {filtint} {width} {filterstrength} 64 16".format(
int = inps.intf,
filtint = inps.fintf,
width = width,
filterstrength = inps.alpha
)
runCmd(cmd)
#get xml file for interferogram
create_xml(inps.fintf, width, length, 'int')
else:
#create flattened interferogram
intImage = isceobj.createIntImage()
intImage.setFilename(inps.intf)
intImage.setWidth(width)
intImage.setAccessMode('read')
intImage.createImage()
#create the filtered interferogram
filtImage = isceobj.createIntImage()
filtImage.setFilename(inps.fintf)
filtImage.setWidth(width)
filtImage.setAccessMode('write')
filtImage.createImage()
#create filter and run it
objFilter = Filter()
objFilter.wireInputPort(name='interferogram',object=intImage)
objFilter.wireOutputPort(name='filtered interferogram',object=filtImage)
objFilter.goldsteinWerner(alpha=inps.alpha)
intImage.finalizeImage()
filtImage.finalizeImage()
del filtImage
#recreate filt image to read
filtImage = isceobj.createIntImage()
filtImage.setFilename(inps.fintf)
filtImage.setWidth(width)
filtImage.setAccessMode('read')
filtImage.createImage()
#create amplitude image
ampImage = isceobj.createAmpImage()
ampImage.setFilename(inps.amp)
ampImage.setWidth(width)
ampImage.setAccessMode('read')
ampImage.createImage()
#create phase sigma correlation file here
phsig_tmp = 'tmp.phsig'
phsigImage = isceobj.createImage()
phsigImage.setFilename(phsig_tmp)
phsigImage.setWidth(width)
phsigImage.dataType='FLOAT'
phsigImage.bands = 1
phsigImage.setImageType('cor')#the type in this case is not for mdx.py displaying but for geocoding method
phsigImage.setAccessMode('write')
phsigImage.createImage()
#create icu and run it
icuObj = Icu(name='insarapp_filter_icu')
icuObj.configure()
icuObj.unwrappingFlag = False
icuObj.icu(intImage = filtImage, ampImage=ampImage, phsigImage=phsigImage)
phsigImage.renderHdr()
filtImage.finalizeImage()
ampImage.finalizeImage()
phsigImage.finalizeImage()
# #add an amplitude channel to phsig file
# cmd = "imageMath.py -e='sqrt(a_0*a_1)*(b!=0);b' --a={amp} --b={phsig_tmp} -o {phsig} -s BIL".format(
# amp = inps.amp,
# phsig_tmp = phsig_tmp,
# phsig = inps.phsig
# )
#add an amplitude channel to phsig file
cmd = "imageMath.py -e='sqrt(a_0*a_1)*(b!=0);b' --a={amp} --b={phsig_tmp} -o {phsig} -s BIL".format(
amp = inps.amp,
phsig_tmp = phsig_tmp,
phsig = inps.phsig
)
runCmd(cmd)
#remove the original phsig file
os.remove(phsig_tmp)
os.remove(phsig_tmp + '.xml')
os.remove(phsig_tmp + '.vrt')
#rename original filtered interferogram
filt_tmp = 'filt_tmp.int'
os.rename(inps.fintf, filt_tmp)
os.rename(inps.fintf + '.xml', filt_tmp + '.xml')
os.rename(inps.fintf + '.vrt', filt_tmp + '.vrt')
#do the numpy calculations
#replace the magnitude of the filtered interferogram with magnitude of original interferogram
#mask output file using layover mask (values 2 and 3).
# cmd = "imageMath.py -e='a/(abs(a)+(abs(a)==0))*abs(b)*(c<2)' --a={0} --b={1} --c={2} -t CFLOAT -o={3}".format(
# filt_tmp,
# inps.intf,
# inps.msk,
# inps.fintf
# )
#replacing magnitude is not good for phase unwrapping using snaphu
cmd = "imageMath.py -e='a*(b<2)' --a={0} --b={1} -t CFLOAT -o={2}".format(
filt_tmp,
inps.msk,
inps.fintf
)
runCmd(cmd)
#remove the original filtered interferogram
os.remove(filt_tmp)
os.remove(filt_tmp + '.xml')
os.remove(filt_tmp + '.vrt')