def create_phsig(ifg_file, cor_file=None):
from mroipac.icu.Icu import Icu
logger.info("Estimating spatial coherence based phase sigma")
if cor_file is None:
ext = os.path.splitext(ifg_file)[1]
cor_file = ifg_file.replace(ext, ".cor")
logger.info("writing output to %s", cor_file)
# Create phase sigma correlation file here
intImage = isceobj.createIntImage()
intImage.load(ifg_file.replace(".xml", "") + ".xml")
intImage.setAccessMode("read")
intImage.createImage()
phsigImage = isceobj.createImage()
phsigImage.dataType = "FLOAT"
phsigImage.bands = 1
phsigImage.setWidth(intImage.getWidth())
phsigImage.setFilename(cor_file)
phsigImage.setAccessMode("write")
phsigImage.createImage()
icuObj = Icu(name="filter_icu")
icuObj.configure()
icuObj.unwrappingFlag = False
icuObj.useAmplitudeFlag = False
icuObj.icu(intImage=intImage, phsigImage=phsigImage)
phsigImage.renderHdr()
intImage.finalizeImage()
phsigImage.finalizeImage()
def estCoherence(outfile, corfile):
from mroipac.icu.Icu import Icu
#Create phase sigma correlation file here
filtImage = isceobj.createIntImage()
filtImage.load(outfile + '.xml')
filtImage.setAccessMode('read')
filtImage.createImage()
phsigImage = isceobj.createImage()
phsigImage.dataType = 'FLOAT'
phsigImage.bands = 1
phsigImage.setWidth(filtImage.getWidth())
phsigImage.setFilename(corfile)
phsigImage.setAccessMode('write')
phsigImage.createImage()
icuObj = Icu(name='sentinel_filter_icu')
icuObj.configure()
icuObj.unwrappingFlag = False
icuObj.useAmplitudeFlag = False
#icuObj.correlationType = 'NOSLOPE'
icuObj.icu(intImage=filtImage, phsigImage=phsigImage)
phsigImage.renderHdr()
filtImage.finalizeImage()
phsigImage.finalizeImage()
def runUnwrap(self):
'''Specific connector from an insarApp object to a Snaphu object.'''
wrapName = self.insar.topophaseFlatFilename
unwrapName = self.insar.unwrappedIntFilename
#Setup images
ampImage = self.insar.resampAmpImage.copy(access_mode='read')
width = ampImage.getWidth()
#intImage
intImage = isceobj.createIntImage()
intImage.initImage(wrapName, 'read', width)
intImage.createImage()
#unwImage
unwImage = isceobj.Image.createUnwImage()
unwImage.setFilename(unwrapName)
unwImage.setWidth(width)
unwImage.imageType = 'unw'
unwImage.bands = 2
unwImage.scheme = 'BIL'
unwImage.dataType = 'FLOAT'
unwImage.setAccessMode('write')
unwImage.createImage()
icuObj = Icu(name='insarapp_icu')
icuObj.configure()
icuObj.icu(intImage=intImage, ampImage=ampImage, unwImage = unwImage)
#At least one can query for the name used
self.insar.connectedComponentsFilename = icuObj.conncompFilename
ampImage.finalizeImage()
intImage.finalizeImage()
unwImage.finalizeImage()
unwImage.renderHdr()
def unwrap(self):
icuObj = Icu()
icuObj.filteringFlag = False ##insarApp.py already filters it
icuObj.initCorrThreshold = 0.1
icuObj.icu(intImage=self.intImage, ampImage=self.ampImage, unwImage = self.unwImage)
self.ampImage.finalizeImage()
self.intImage.finalizeImage()
self.unwImage.renderHdr()
self.unwImage.finalizeImage()
def runUnwrapIcu(infile, outfile):
from mroipac.icu.Icu import Icu
#Setup images
#ampImage
# ampImage = obj.insar.resampAmpImage.copy(access_mode='read')
# width = self.ampImage.getWidth()
img = isceobj.createImage()
img.load(infile + '.xml')
width = img.getWidth()
#intImage
intImage = isceobj.createIntImage()
intImage.initImage(infile, 'read', width)
intImage.createImage()
#unwImage
unwImage = isceobj.Image.createImage()
unwImage.setFilename(outfile)
unwImage.setWidth(width)
unwImage.imageType = 'unw'
unwImage.bands = 2
unwImage.scheme = 'BIL'
unwImage.dataType = 'FLOAT'
unwImage.setAccessMode('write')
unwImage.createImage()
#unwrap with icu
icuObj = Icu()
icuObj.filteringFlag = False
icuObj.useAmplitudeFlag = False
icuObj.singlePatch = True
icuObj.initCorrThreshold = 0.1
icuObj.icu(intImage=intImage, unwImage = unwImage)
#ampImage.finalizeImage()
intImage.finalizeImage()
unwImage.finalizeImage()
unwImage.renderHdr()
def runUnwrap(self):
'''Specific connector from an insarApp object to a Snaphu object.'''
wrapName = os.path.join(self._insar.mergedDirname,
self._insar.filtFilename)
unwrapName = os.path.join(self._insar.mergedDirname,
self._insar.unwrappedIntFilename)
print(wrapName, unwrapName)
#intImage
intImage = isceobj.createImage()
intImage.load(wrapName + '.xml')
intImage.setAccessMode('READ')
intImage.createImage()
#unwImage
unwImage = isceobj.Image.createUnwImage()
unwImage.setFilename(unwrapName)
unwImage.setWidth(intImage.getWidth())
unwImage.imageType = 'unw'
unwImage.bands = 2
unwImage.scheme = 'BIL'
unwImage.dataType = 'FLOAT'
unwImage.setAccessMode('write')
unwImage.createImage()
icuObj = Icu(name='topsapp_icu')
icuObj.configure()
icuObj.useAmplitudeFlag = False
icuObj.icu(intImage=intImage, unwImage=unwImage)
#At least one can query for the name used
self._insar.connectedComponentsFilename = icuObj.conncompFilename
intImage.finalizeImage()
unwImage.finalizeImage()
unwImage.renderHdr()
def estPhaseSigma(insar):
from mroipac.icu.Icu import Icu
intImage = isceobj.createSlcImage() #Filtered file
intImage.setWidth(insar.resampIntImage.width)
intImage.setFilename(insar.topophaseFlatFilename)
intImage.setAccessMode('read')
ampImage = isceobj.createAmpImage()
ampImage.setWidth(insar.resampIntImage.width)
ampImage.setFilename('resampOnlyImage.amp')
ampImage.setAccessMode('read')
outImage = isceobj.createRgImage()
outImage.imageType = 'cor'
outImage.scheme = 'BIL'
outImage.bands = 1
outImage.setWidth(insar.resampIntImage.width)
outImage.setFilename('phsig.cor')
outImage.setAccessMode('write')
intImage.createImage()
ampImage.createImage()
outImage.createImage()
icuObj = Icu()
icuObj.filteringFlag = False
icuObj.unwrappingFlag = False
icuObj.initCorrThreshold = 0.1
icuObj.icu(intImage=intImage, ampImage=ampImage, phsigImage=outImage)
outImage.renderHdr()
intImage.finalizeImage()
ampImage.finalizeImage()
outImage.finalizeImage()
def run(resampAmpImage, infos, sceneid='NO_ID'):
logger.info("Unwrapping interferogram using ICU: %s" % sceneid)
wrapName = infos['outputPath'] + '.' + infos['topophaseFlatFilename']
unwrapName = infos['outputPath'] + '.' + infos['unwrappedIntFilename']
#Setup images
ampImage = resampAmpImage.copy(access_mode='read')
width = ampImage.getWidth()
#intImage
intImage = isceobj.createIntImage()
intImage.initImage(wrapName, 'read', width)
intImage.createImage()
#unwImage
unwImage = isceobj.Image.createUnwImage()
unwImage.setFilename(unwrapName)
unwImage.setWidth(width)
unwImage.imageType = 'unw'
unwImage.bands = 2
unwImage.scheme = 'BIL'
unwImage.dataType = 'FLOAT'
unwImage.setAccessMode('write')
unwImage.createImage()
#icuObj = Icu()
#icuObj.filteringFlag = False ##insarApp.py already filters it
icuObj = Icu(name='insarapp_icu')
icuObj.configure()
icuObj.initCorrThreshold = 0.1
icuObj.icu(intImage=intImage, ampImage=ampImage, unwImage=unwImage)
ampImage.finalizeImage()
intImage.finalizeImage()
unwImage.finalizeImage()
unwImage.renderHdr()
def runIonUwrap(self):
'''unwrap subband interferograms
'''
catalog = isceobj.Catalog.createCatalog(self._insar.procDoc.name)
self.updateParamemetersFromUser()
if not self.doIon:
catalog.printToLog(logger, "runIonUwrap")
self._insar.procDoc.addAllFromCatalog(catalog)
return
referenceTrack = self._insar.loadTrack(reference=True)
secondaryTrack = self._insar.loadTrack(reference=False)
wbdFile = os.path.abspath(self._insar.wbd)
from isceobj.Alos2Proc.runIonSubband import defineIonDir
ionDir = defineIonDir()
subbandPrefix = ['lower', 'upper']
ionCalDir = os.path.join(ionDir['ion'], ionDir['ionCal'])
os.makedirs(ionCalDir, exist_ok=True)
os.chdir(ionCalDir)
############################################################
# STEP 1. take looks
############################################################
from isceobj.Alos2Proc.Alos2ProcPublic import create_xml
from contrib.alos2proc.alos2proc import look
from isceobj.Alos2Proc.Alos2ProcPublic import waterBodyRadar
ml2 = '_{}rlks_{}alks'.format(self._insar.numberRangeLooks1*self._insar.numberRangeLooksIon,
self._insar.numberAzimuthLooks1*self._insar.numberAzimuthLooksIon)
for k in range(2):
fullbandDir = os.path.join('../../', ionDir['insar'])
subbandDir = os.path.join('../', ionDir['subband'][k], ionDir['insar'])
prefix = subbandPrefix[k]
amp = isceobj.createImage()
amp.load(os.path.join(subbandDir, self._insar.amplitude)+'.xml')
width = amp.width
length = amp.length
width2 = int(width / self._insar.numberRangeLooksIon)
length2 = int(length / self._insar.numberAzimuthLooksIon)
#take looks
look(os.path.join(subbandDir, self._insar.differentialInterferogram), prefix+ml2+'.int', width, self._insar.numberRangeLooksIon, self._insar.numberAzimuthLooksIon, 4, 0, 1)
create_xml(prefix+ml2+'.int', width2, length2, 'int')
look(os.path.join(subbandDir, self._insar.amplitude), prefix+ml2+'.amp', width, self._insar.numberRangeLooksIon, self._insar.numberAzimuthLooksIon, 4, 1, 1)
create_xml(prefix+ml2+'.amp', width2, length2, 'amp')
# #water body
# if k == 0:
# wbdOutFile = os.path.join(fullbandDir, self._insar.wbdOut)
# if os.path.isfile(wbdOutFile):
# look(wbdOutFile, 'wbd'+ml2+'.wbd', width, self._insar.numberRangeLooksIon, self._insar.numberAzimuthLooksIon, 0, 0, 1)
# create_xml('wbd'+ml2+'.wbd', width2, length2, 'byte')
#water body
if k == 0:
look(os.path.join(fullbandDir, self._insar.latitude), 'lat'+ml2+'.lat', width, self._insar.numberRangeLooksIon, self._insar.numberAzimuthLooksIon, 3, 0, 1)
look(os.path.join(fullbandDir, self._insar.longitude), 'lon'+ml2+'.lon', width, self._insar.numberRangeLooksIon, self._insar.numberAzimuthLooksIon, 3, 0, 1)
create_xml('lat'+ml2+'.lat', width2, length2, 'double')
create_xml('lon'+ml2+'.lon', width2, length2, 'double')
waterBodyRadar('lat'+ml2+'.lat', 'lon'+ml2+'.lon', wbdFile, 'wbd'+ml2+'.wbd')
############################################################
# STEP 2. compute coherence
############################################################
from isceobj.Alos2Proc.Alos2ProcPublic import cal_coherence
lowerbandInterferogramFile = subbandPrefix[0]+ml2+'.int'
upperbandInterferogramFile = subbandPrefix[1]+ml2+'.int'
lowerbandAmplitudeFile = subbandPrefix[0]+ml2+'.amp'
upperbandAmplitudeFile = subbandPrefix[1]+ml2+'.amp'
lowerbandCoherenceFile = subbandPrefix[0]+ml2+'.cor'
upperbandCoherenceFile = subbandPrefix[1]+ml2+'.cor'
coherenceFile = 'diff'+ml2+'.cor'
lowerint = np.fromfile(lowerbandInterferogramFile, dtype=np.complex64).reshape(length2, width2)
upperint = np.fromfile(upperbandInterferogramFile, dtype=np.complex64).reshape(length2, width2)
loweramp = np.fromfile(lowerbandAmplitudeFile, dtype=np.float32).reshape(length2, width2*2)
upperamp = np.fromfile(upperbandAmplitudeFile, dtype=np.float32).reshape(length2, width2*2)
#compute coherence only using interferogram
#here I use differential interferogram of lower and upper band interferograms
#so that coherence is not affected by fringes
cord = cal_coherence(lowerint*np.conjugate(upperint), win=3, edge=4)
cor = np.zeros((length2*2, width2), dtype=np.float32)
cor[0:length2*2:2, :] = np.sqrt( (np.absolute(lowerint)+np.absolute(upperint))/2.0 )
cor[1:length2*2:2, :] = cord
cor.astype(np.float32).tofile(coherenceFile)
create_xml(coherenceFile, width2, length2, 'cor')
#create lower and upper band coherence files
#lower
amp1 = loweramp[:, 0:width2*2:2]
amp2 = loweramp[:, 1:width2*2:2]
cor[1:length2*2:2, :] = np.absolute(lowerint)/(amp1+(amp1==0))/(amp2+(amp2==0))*(amp1!=0)*(amp2!=0)
cor.astype(np.float32).tofile(lowerbandCoherenceFile)
create_xml(lowerbandCoherenceFile, width2, length2, 'cor')
#upper
amp1 = upperamp[:, 0:width2*2:2]
amp2 = upperamp[:, 1:width2*2:2]
cor[1:length2*2:2, :] = np.absolute(upperint)/(amp1+(amp1==0))/(amp2+(amp2==0))*(amp1!=0)*(amp2!=0)
cor.astype(np.float32).tofile(upperbandCoherenceFile)
create_xml(upperbandCoherenceFile, width2, length2, 'cor')
############################################################
# STEP 3. filtering subband interferograms
############################################################
from contrib.alos2filter.alos2filter import psfilt1
from isceobj.Alos2Proc.Alos2ProcPublic import runCmd
from isceobj.Alos2Proc.Alos2ProcPublic import create_xml
from mroipac.icu.Icu import Icu
if self.filterSubbandInt:
for k in range(2):
toBeFiltered = 'tmp.int'
if self.removeMagnitudeBeforeFilteringSubbandInt:
cmd = "imageMath.py -e='a/(abs(a)+(a==0))' --a={} -o {} -t cfloat -s BSQ".format(subbandPrefix[k]+ml2+'.int', toBeFiltered)
else:
#scale the inteferogram, otherwise its magnitude is too large for filtering
cmd = "imageMath.py -e='a/100000.0' --a={} -o {} -t cfloat -s BSQ".format(subbandPrefix[k]+ml2+'.int', toBeFiltered)
runCmd(cmd)
intImage = isceobj.createIntImage()
intImage.load(toBeFiltered + '.xml')
width = intImage.width
length = intImage.length
windowSize = self.filterWinsizeSubbandInt
stepSize = self.filterStepsizeSubbandInt
psfilt1(toBeFiltered, 'filt_'+subbandPrefix[k]+ml2+'.int', width, self.filterStrengthSubbandInt, windowSize, stepSize)
create_xml('filt_'+subbandPrefix[k]+ml2+'.int', width, length, 'int')
os.remove(toBeFiltered)
os.remove(toBeFiltered + '.vrt')
os.remove(toBeFiltered + '.xml')
#create phase sigma for phase unwrapping
#recreate filtered image
filtImage = isceobj.createIntImage()
filtImage.load('filt_'+subbandPrefix[k]+ml2+'.int' + '.xml')
filtImage.setAccessMode('read')
filtImage.createImage()
#amplitude image
ampImage = isceobj.createAmpImage()
ampImage.load(subbandPrefix[k]+ml2+'.amp' + '.xml')
ampImage.setAccessMode('read')
ampImage.createImage()
#phase sigma correlation image
phsigImage = isceobj.createImage()
phsigImage.setFilename(subbandPrefix[k]+ml2+'.phsig')
phsigImage.setWidth(width)
phsigImage.dataType='FLOAT'
phsigImage.bands = 1
phsigImage.setImageType('cor')
phsigImage.setAccessMode('write')
phsigImage.createImage()
icu = Icu(name='insarapp_filter_icu')
icu.configure()
icu.unwrappingFlag = False
icu.icu(intImage = filtImage, ampImage=ampImage, phsigImage=phsigImage)
phsigImage.renderHdr()
filtImage.finalizeImage()
ampImage.finalizeImage()
phsigImage.finalizeImage()
############################################################
# STEP 4. phase unwrapping
############################################################
from isceobj.Alos2Proc.Alos2ProcPublic import snaphuUnwrap
for k in range(2):
tmid = referenceTrack.sensingStart + datetime.timedelta(seconds=(self._insar.numberAzimuthLooks1-1.0)/2.0*referenceTrack.azimuthLineInterval+
referenceTrack.numberOfLines/2.0*self._insar.numberAzimuthLooks1*referenceTrack.azimuthLineInterval)
if self.filterSubbandInt:
toBeUnwrapped = 'filt_'+subbandPrefix[k]+ml2+'.int'
coherenceFile = subbandPrefix[k]+ml2+'.phsig'
else:
toBeUnwrapped = subbandPrefix[k]+ml2+'.int'
coherenceFile = 'diff'+ml2+'.cor'
snaphuUnwrap(referenceTrack, tmid,
toBeUnwrapped,
coherenceFile,
subbandPrefix[k]+ml2+'.unw',
self._insar.numberRangeLooks1*self._insar.numberRangeLooksIon,
self._insar.numberAzimuthLooks1*self._insar.numberAzimuthLooksIon,
costMode = 'SMOOTH',initMethod = 'MCF', defomax = 2, initOnly = True)
os.chdir('../../')
catalog.printToLog(logger, "runIonUwrap")
self._insar.procDoc.addAllFromCatalog(catalog)
def runFilt(self):
'''filter interferogram
'''
catalog = isceobj.Catalog.createCatalog(self._insar.procDoc.name)
self.updateParamemetersFromUser()
#masterTrack = self._insar.loadTrack(master=True)
#slaveTrack = self._insar.loadTrack(master=False)
insarDir = 'insar'
os.makedirs(insarDir, exist_ok=True)
os.chdir(insarDir)
############################################################
# STEP 1. filter interferogram
############################################################
print('\nfilter interferogram: {}'.format(
self._insar.multilookDifferentialInterferogram))
toBeFiltered = self._insar.multilookDifferentialInterferogram
if self.removeMagnitudeBeforeFiltering:
toBeFiltered = 'tmp.int'
cmd = "imageMath.py -e='a/(abs(a)+(a==0))' --a={} -o {} -t cfloat -s BSQ".format(
self._insar.multilookDifferentialInterferogram, toBeFiltered)
runCmd(cmd)
#if shutil.which('psfilt1') != None:
if True:
intImage = isceobj.createIntImage()
intImage.load(toBeFiltered + '.xml')
width = intImage.width
length = intImage.length
# cmd = "psfilt1 {int} {filtint} {width} {filterstrength} 64 16".format(
# int = toBeFiltered,
# filtint = self._insar.filteredInterferogram,
# width = width,
# filterstrength = self.filterStrength
# )
# runCmd(cmd)
windowSize = self.filterWinsize
stepSize = self.filterStepsize
psfilt1(toBeFiltered, self._insar.filteredInterferogram, width,
self.filterStrength, windowSize, stepSize)
create_xml(self._insar.filteredInterferogram, width, length, 'int')
else:
#original
intImage = isceobj.createIntImage()
intImage.load(toBeFiltered + '.xml')
intImage.setAccessMode('read')
intImage.createImage()
width = intImage.width
length = intImage.length
#filtered
filtImage = isceobj.createIntImage()
filtImage.setFilename(self._insar.filteredInterferogram)
filtImage.setWidth(width)
filtImage.setAccessMode('write')
filtImage.createImage()
#looks like the ps filtering program keep the original interferogram magnitude, which is bad for phase unwrapping?
filters = Filter()
filters.wireInputPort(name='interferogram', object=intImage)
filters.wireOutputPort(name='filtered interferogram', object=filtImage)
filters.goldsteinWerner(alpha=self.filterStrength)
intImage.finalizeImage()
filtImage.finalizeImage()
del intImage, filtImage, filters
if self.removeMagnitudeBeforeFiltering:
os.remove(toBeFiltered)
os.remove(toBeFiltered + '.vrt')
os.remove(toBeFiltered + '.xml')
#restore original magnitude
tmpFile = 'tmp.int'
renameFile(self._insar.filteredInterferogram, tmpFile)
cmd = "imageMath.py -e='a*abs(b)' --a={} --b={} -o {} -t cfloat -s BSQ".format(
tmpFile, self._insar.multilookDifferentialInterferogram,
self._insar.filteredInterferogram)
runCmd(cmd)
os.remove(tmpFile)
os.remove(tmpFile + '.vrt')
os.remove(tmpFile + '.xml')
############################################################
# STEP 2. create phase sigma using filtered interferogram
############################################################
print('\ncreate phase sigma using: {}'.format(
self._insar.filteredInterferogram))
#recreate filtered image
filtImage = isceobj.createIntImage()
filtImage.load(self._insar.filteredInterferogram + '.xml')
filtImage.setAccessMode('read')
filtImage.createImage()
#amplitude image
ampImage = isceobj.createAmpImage()
ampImage.load(self._insar.multilookAmplitude + '.xml')
ampImage.setAccessMode('read')
ampImage.createImage()
#phase sigma correlation image
phsigImage = isceobj.createImage()
phsigImage.setFilename(self._insar.multilookPhsig)
phsigImage.setWidth(width)
phsigImage.dataType = 'FLOAT'
phsigImage.bands = 1
phsigImage.setImageType('cor')
phsigImage.setAccessMode('write')
phsigImage.createImage()
icu = Icu(name='insarapp_filter_icu')
icu.configure()
icu.unwrappingFlag = False
icu.icu(intImage=filtImage, ampImage=ampImage, phsigImage=phsigImage)
phsigImage.renderHdr()
filtImage.finalizeImage()
ampImage.finalizeImage()
phsigImage.finalizeImage()
del filtImage
del ampImage
del phsigImage
del icu
############################################################
# STEP 3. mask filtered interferogram using water body
############################################################
print('\nmask filtered interferogram using: {}'.format(
self._insar.multilookWbdOut))
if self.waterBodyMaskStartingStep == 'filt':
if not os.path.exists(self._insar.multilookWbdOut):
catalog.addItem(
'warning message',
'requested masking interferogram with water body, but water body does not exist',
'runFilt')
else:
wbd = np.fromfile(self._insar.multilookWbdOut,
dtype=np.int8).reshape(length, width)
phsig = np.memmap(self._insar.multilookPhsig,
dtype='float32',
mode='r+',
shape=(length, width))
phsig[np.nonzero(wbd == -1)] = 0
del phsig
filt = np.memmap(self._insar.filteredInterferogram,
dtype='complex64',
mode='r+',
shape=(length, width))
filt[np.nonzero(wbd == -1)] = 0
del filt
del wbd
os.chdir('../')
catalog.printToLog(logger, "runFilt")
self._insar.procDoc.addAllFromCatalog(catalog)
def runFilter(self, filterStrength):
logger.info("Applying power-spectral filter")
# Initialize the flattened interferogram
topoflatIntFilename = self.insar.topophaseFlatFilename
intImage = isceobj.createIntImage()
widthInt = self.insar.resampIntImage.width
intImage.setFilename(topoflatIntFilename)
intImage.setWidth(widthInt)
intImage.setAccessMode('read')
intImage.createImage()
# Create the filtered interferogram
filtIntFilename = 'filt_' + topoflatIntFilename
filtImage = isceobj.createIntImage()
filtImage.setFilename(filtIntFilename)
filtImage.setWidth(widthInt)
filtImage.setAccessMode('write')
filtImage.createImage()
objFilter = Filter()
objFilter.wireInputPort(name='interferogram', object=intImage)
objFilter.wireOutputPort(name='filtered interferogram', object=filtImage)
if filterStrength is not None:
self.insar.filterStrength = filterStrength
objFilter.goldsteinWerner(alpha=self.insar.filterStrength)
intImage.finalizeImage()
filtImage.finalizeImage()
del filtImage
#Create phase sigma correlation file here
filtImage = isceobj.createIntImage()
filtImage.setFilename(filtIntFilename)
filtImage.setWidth(widthInt)
filtImage.setAccessMode('read')
filtImage.createImage()
phsigImage = isceobj.createImage()
phsigImage.dataType = 'FLOAT'
phsigImage.bands = 1
phsigImage.setWidth(widthInt)
phsigImage.setFilename(self.insar.phsigFilename)
phsigImage.setAccessMode('write')
phsigImage.setImageType(
'cor'
) #the type in this case is not for mdx.py displaying but for geocoding method
phsigImage.createImage()
ampImage = isceobj.createAmpImage()
IU.copyAttributes(self.insar.resampAmpImage, ampImage)
ampImage.setAccessMode('read')
ampImage.createImage()
icuObj = Icu(name='insarapp_filter_icu')
icuObj.configure()
icuObj.unwrappingFlag = False
icuObj.icu(intImage=filtImage, ampImage=ampImage, phsigImage=phsigImage)
filtImage.finalizeImage()
phsigImage.finalizeImage()
ampImage.finalizeImage()
phsigImage.renderHdr()
# Set the filtered image to be the one geocoded
self.insar.topophaseFlatFilename = filtIntFilename
def run(resampAmpImage, widthInt, infos, catalog=None, sceneid='NO_ID'):
logger.info("Applying power-spectral filter: %s" % sceneid)
# Initialize the flattened interferogram
topoflatIntFilename = infos['outputPath'] + '.' + infos['topophaseFlatFilename']
intImage = isceobj.createIntImage()
intImage.setFilename(topoflatIntFilename)
intImage.setWidth(widthInt)
intImage.setAccessMode('read')
intImage.createImage()
# Create the filtered interferogram
filtIntFilename = infos['outputPath'] + '.' + infos['filt_topophaseFlatFilename']
filtImage = isceobj.createIntImage()
filtImage.setFilename(filtIntFilename)
filtImage.setWidth(widthInt)
filtImage.setAccessMode('write')
filtImage.createImage()
objFilter = Filter()
objFilter.wireInputPort(name='interferogram',object=intImage)
objFilter.wireOutputPort(name='filtered interferogram',object=filtImage)
objFilter.goldsteinWerner(alpha=infos['filterStrength'])
intImage.finalizeImage()
filtImage.finalizeImage()
#Create phase sigma correlation file here
filtImage = isceobj.createIntImage()
filtImage.setFilename(filtIntFilename)
filtImage.setWidth(widthInt)
filtImage.setAccessMode('read')
filtImage.createImage()
phsigFilename = infos['outputPath'] + '.' + infos['phsigFilename']
phsigImage = isceobj.createImage()
phsigImage.dataType='FLOAT'
phsigImage.bands = 1
phsigImage.setWidth(widthInt)
phsigImage.setFilename(phsigFilename)
phsigImage.setAccessMode('write')
phsigImage.setImageType('cor')#the type in this case is not for mdx.py displaying but for geocoding method
phsigImage.createImage()
ampImage = isceobj.createAmpImage()
IU.copyAttributes(resampAmpImage, ampImage)
ampImage.setAccessMode('read')
ampImage.createImage()
icuObj = Icu(name='insarapp_filter_icu')
icuObj.configure()
icuObj.filteringFlag = False
icuObj.unwrappingFlag = False
icuObj.initCorrThreshold = 0.1
icuObj.icu(intImage=filtImage, ampImage=ampImage, phsigImage=phsigImage)
filtImage.finalizeImage()
phsigImage.finalizeImage()
phsigImage.renderHdr()
ampImage.finalizeImage()
def runFilter(self):
if not self.doInSAR:
return
logger.info("Applying power-spectral filter")
mergedir = self._insar.mergedDirname
filterStrength = self.filterStrength
# Initialize the flattened interferogram
inFilename = os.path.join(mergedir, self._insar.mergedIfgname)
intImage = isceobj.createIntImage()
intImage.load(inFilename + '.xml')
intImage.setAccessMode('read')
intImage.createImage()
widthInt = intImage.getWidth()
# Create the filtered interferogram
filtIntFilename = os.path.join(mergedir, self._insar.filtFilename)
filtImage = isceobj.createIntImage()
filtImage.setFilename(filtIntFilename)
filtImage.setWidth(widthInt)
filtImage.setAccessMode('write')
filtImage.createImage()
objFilter = Filter()
objFilter.wireInputPort(name='interferogram', object=intImage)
objFilter.wireOutputPort(name='filtered interferogram', object=filtImage)
objFilter.goldsteinWerner(alpha=filterStrength)
intImage.finalizeImage()
filtImage.finalizeImage()
del filtImage
#Create phase sigma correlation file here
filtImage = isceobj.createIntImage()
filtImage.setFilename(filtIntFilename)
filtImage.setWidth(widthInt)
filtImage.setAccessMode('read')
filtImage.createImage()
phsigImage = isceobj.createImage()
phsigImage.dataType = 'FLOAT'
phsigImage.bands = 1
phsigImage.setWidth(widthInt)
phsigImage.setFilename(
os.path.join(mergedir, self._insar.coherenceFilename))
phsigImage.setAccessMode('write')
phsigImage.setImageType(
'cor'
) #the type in this case is not for mdx.py displaying but for geocoding method
phsigImage.createImage()
icuObj = Icu(name='topsapp_filter_icu')
icuObj.configure()
icuObj.unwrappingFlag = False
icuObj.useAmplitudeFlag = False
icuObj.icu(intImage=filtImage, phsigImage=phsigImage)
filtImage.finalizeImage()
phsigImage.finalizeImage()
phsigImage.renderHdr()
def runUnwrap(self, igramSpectrum="full"):
'''Specific connector from an insarApp object to a Snaphu object.'''
if igramSpectrum == "full":
ifgDirname = self.insar.ifgDirname
elif igramSpectrum == "low":
if not self.doDispersive:
print(
'Estimating dispersive phase not requested ... skipping sub-band interferogram unwrapping'
)
return
ifgDirname = os.path.join(self.insar.ifgDirname,
self.insar.lowBandSlcDirname)
elif igramSpectrum == "high":
if not self.doDispersive:
print(
'Estimating dispersive phase not requested ... skipping sub-band interferogram unwrapping'
)
return
ifgDirname = os.path.join(self.insar.ifgDirname,
self.insar.highBandSlcDirname)
wrapName = os.path.join(ifgDirname, 'filt_' + self.insar.ifgFilename)
if '.flat' in wrapName:
unwrapName = wrapName.replace('.flat', '.unw')
elif '.int' in wrapName:
unwrapName = wrapName.replace('.int', '.unw')
else:
unwrapName = wrapName + '.unw'
img1 = isceobj.createImage()
img1.load(wrapName + '.xml')
width = img1.getWidth()
# Get amp image name
originalWrapName = os.path.join(ifgDirname, self.insar.ifgFilename)
if '.flat' in originalWrapName:
resampAmpImage = originalWrapName.replace('.flat', '.amp')
elif '.int' in originalWrapName:
resampAmpImage = originalWrapName.replace('.int', '.amp')
else:
resampAmpImage = originalWrapName + '.amp'
ampImage = isceobj.createAmpImage()
ampImage.setWidth(width)
ampImage.setFilename(resampAmpImage)
ampImage.setAccessMode('read')
ampImage.createImage()
#width = ampImage.getWidth()
#intImage
intImage = isceobj.createIntImage()
intImage.initImage(wrapName, 'read', width)
intImage.createImage()
#unwImage
unwImage = isceobj.Image.createUnwImage()
unwImage.setFilename(unwrapName)
unwImage.setWidth(width)
unwImage.imageType = 'unw'
unwImage.bands = 2
unwImage.scheme = 'BIL'
unwImage.dataType = 'FLOAT'
unwImage.setAccessMode('write')
unwImage.createImage()
icuObj = Icu(name='insarapp_icu')
icuObj.configure()
icuObj.filteringFlag = False
#icuObj.useAmplitudeFlag = False
icuObj.singlePatch = True
icuObj.initCorrThreshold = 0.1
icuObj.icu(intImage=intImage, ampImage=ampImage, unwImage=unwImage)
#At least one can query for the name used
self.insar.connectedComponentsFilename = icuObj.conncompFilename
ampImage.finalizeImage()
intImage.finalizeImage()
unwImage.finalizeImage()
unwImage.renderHdr()
def runFilter(self, filterStrength, igramSpectrum = "full"):
logger.info("Applying power-spectral filter")
if igramSpectrum == "full":
logger.info("Filtering the full-band interferogram")
ifgDirname = self.insar.ifgDirname
elif igramSpectrum == "low":
if not self.doDispersive:
print('Estimating dispersive phase not requested ... skipping sub-band interferograms')
return
logger.info("Filtering the low-band interferogram")
ifgDirname = os.path.join(self.insar.ifgDirname, self.insar.lowBandSlcDirname)
elif igramSpectrum == "high":
if not self.doDispersive:
print('Estimating dispersive phase not requested ... skipping sub-band interferograms')
return
logger.info("Filtering the high-band interferogram")
ifgDirname = os.path.join(self.insar.ifgDirname, self.insar.highBandSlcDirname)
topoflatIntFilename = os.path.join(ifgDirname , self.insar.ifgFilename)
img1 = isceobj.createImage()
img1.load(topoflatIntFilename + '.xml')
widthInt = img1.getWidth()
intImage = isceobj.createIntImage()
intImage.setFilename(topoflatIntFilename)
intImage.setWidth(widthInt)
intImage.setAccessMode('read')
intImage.createImage()
# Create the filtered interferogram
filtIntFilename = os.path.join(ifgDirname , 'filt_' + self.insar.ifgFilename)
filtImage = isceobj.createIntImage()
filtImage.setFilename(filtIntFilename)
filtImage.setWidth(widthInt)
filtImage.setAccessMode('write')
filtImage.createImage()
objFilter = Filter()
objFilter.wireInputPort(name='interferogram',object=intImage)
objFilter.wireOutputPort(name='filtered interferogram',object=filtImage)
if filterStrength is not None:
self.insar.filterStrength = filterStrength
objFilter.goldsteinWerner(alpha=self.insar.filterStrength)
intImage.finalizeImage()
filtImage.finalizeImage()
del filtImage
#Create phase sigma correlation file here
filtImage = isceobj.createIntImage()
filtImage.setFilename(filtIntFilename)
filtImage.setWidth(widthInt)
filtImage.setAccessMode('read')
filtImage.createImage()
phsigImage = isceobj.createImage()
phsigImage.dataType='FLOAT'
phsigImage.bands = 1
phsigImage.setWidth(widthInt)
phsigImage.setFilename(os.path.join(ifgDirname , self.insar.coherenceFilename))
phsigImage.setAccessMode('write')
phsigImage.setImageType('cor')#the type in this case is not for mdx.py displaying but for geocoding method
phsigImage.createImage()
resampAmpImage = os.path.join(ifgDirname , self.insar.ifgFilename)
if '.flat' in resampAmpImage:
resampAmpImage = resampAmpImage.replace('.flat', '.amp')
elif '.int' in resampAmpImage:
resampAmpImage = resampAmpImage.replace('.int', '.amp')
else:
resampAmpImage += '.amp'
ampImage = isceobj.createAmpImage()
ampImage.setWidth(widthInt)
ampImage.setFilename(resampAmpImage)
#IU.copyAttributes(self.insar.resampAmpImage, ampImage)
#IU.copyAttributes(resampAmpImage, ampImage)
ampImage.setAccessMode('read')
ampImage.createImage()
icuObj = Icu(name='stripmapapp_filter_icu')
icuObj.configure()
icuObj.unwrappingFlag = False
icuObj.icu(intImage = filtImage, ampImage=ampImage, phsigImage=phsigImage)
filtImage.finalizeImage()
phsigImage.finalizeImage()
phsigImage.renderHdr()
ampImage.finalizeImage()
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')