def runSwathMosaic(self):
'''mosaic subswaths
'''
catalog = isceobj.Catalog.createCatalog(self._insar.procDoc.name)
self.updateParamemetersFromUser()
referenceTrack = self._insar.loadTrack(reference=True)
secondaryTrack = self._insar.loadTrack(reference=False)
for i, frameNumber in enumerate(self._insar.referenceFrames):
frameDir = 'f{}_{}'.format(i + 1, frameNumber)
os.chdir(frameDir)
mosaicDir = 'mosaic'
os.makedirs(mosaicDir, exist_ok=True)
os.chdir(mosaicDir)
if not (
((self._insar.modeCombination == 21) or \
(self._insar.modeCombination == 22) or \
(self._insar.modeCombination == 31) or \
(self._insar.modeCombination == 32))
and
(self._insar.endingSwath-self._insar.startingSwath+1 > 1)
):
import shutil
swathDir = 's{}'.format(
referenceTrack.frames[i].swaths[0].swathNumber)
if not os.path.isfile(self._insar.interferogram):
os.symlink(
os.path.join('../', swathDir, self._insar.interferogram),
self._insar.interferogram)
shutil.copy2(
os.path.join('../', swathDir,
self._insar.interferogram + '.vrt'),
self._insar.interferogram + '.vrt')
shutil.copy2(
os.path.join('../', swathDir,
self._insar.interferogram + '.xml'),
self._insar.interferogram + '.xml')
if not os.path.isfile(self._insar.amplitude):
os.symlink(
os.path.join('../', swathDir, self._insar.amplitude),
self._insar.amplitude)
shutil.copy2(
os.path.join('../', swathDir, self._insar.amplitude + '.vrt'),
self._insar.amplitude + '.vrt')
shutil.copy2(
os.path.join('../', swathDir, self._insar.amplitude + '.xml'),
self._insar.amplitude + '.xml')
# os.rename(os.path.join('../', swathDir, self._insar.interferogram), self._insar.interferogram)
# os.rename(os.path.join('../', swathDir, self._insar.interferogram+'.vrt'), self._insar.interferogram+'.vrt')
# os.rename(os.path.join('../', swathDir, self._insar.interferogram+'.xml'), self._insar.interferogram+'.xml')
# os.rename(os.path.join('../', swathDir, self._insar.amplitude), self._insar.amplitude)
# os.rename(os.path.join('../', swathDir, self._insar.amplitude+'.vrt'), self._insar.amplitude+'.vrt')
# os.rename(os.path.join('../', swathDir, self._insar.amplitude+'.xml'), self._insar.amplitude+'.xml')
#update frame parameters
#########################################################
frame = referenceTrack.frames[i]
infImg = isceobj.createImage()
infImg.load(self._insar.interferogram + '.xml')
#mosaic size
frame.numberOfSamples = infImg.width
frame.numberOfLines = infImg.length
#NOTE THAT WE ARE STILL USING SINGLE LOOK PARAMETERS HERE
#range parameters
frame.startingRange = frame.swaths[0].startingRange
frame.rangeSamplingRate = frame.swaths[0].rangeSamplingRate
frame.rangePixelSize = frame.swaths[0].rangePixelSize
#azimuth parameters
frame.sensingStart = frame.swaths[0].sensingStart
frame.prf = frame.swaths[0].prf
frame.azimuthPixelSize = frame.swaths[0].azimuthPixelSize
frame.azimuthLineInterval = frame.swaths[0].azimuthLineInterval
#update frame parameters, secondary
#########################################################
frame = secondaryTrack.frames[i]
#mosaic size
frame.numberOfSamples = int(frame.swaths[0].numberOfSamples /
self._insar.numberRangeLooks1)
frame.numberOfLines = int(frame.swaths[0].numberOfLines /
self._insar.numberAzimuthLooks1)
#NOTE THAT WE ARE STILL USING SINGLE LOOK PARAMETERS HERE
#range parameters
frame.startingRange = frame.swaths[0].startingRange
frame.rangeSamplingRate = frame.swaths[0].rangeSamplingRate
frame.rangePixelSize = frame.swaths[0].rangePixelSize
#azimuth parameters
frame.sensingStart = frame.swaths[0].sensingStart
frame.prf = frame.swaths[0].prf
frame.azimuthPixelSize = frame.swaths[0].azimuthPixelSize
frame.azimuthLineInterval = frame.swaths[0].azimuthLineInterval
os.chdir('../')
#save parameter file
self._insar.saveProduct(referenceTrack.frames[i],
self._insar.referenceFrameParameter)
self._insar.saveProduct(secondaryTrack.frames[i],
self._insar.secondaryFrameParameter)
os.chdir('../')
continue
#choose offsets
numberOfFrames = len(referenceTrack.frames)
numberOfSwaths = len(referenceTrack.frames[i].swaths)
if self.swathOffsetMatching:
#no need to do this as the API support 2-d list
#rangeOffsets = (np.array(self._insar.swathRangeOffsetMatchingReference)).reshape(numberOfFrames, numberOfSwaths)
#azimuthOffsets = (np.array(self._insar.swathAzimuthOffsetMatchingReference)).reshape(numberOfFrames, numberOfSwaths)
rangeOffsets = self._insar.swathRangeOffsetMatchingReference
azimuthOffsets = self._insar.swathAzimuthOffsetMatchingReference
else:
#rangeOffsets = (np.array(self._insar.swathRangeOffsetGeometricalReference)).reshape(numberOfFrames, numberOfSwaths)
#azimuthOffsets = (np.array(self._insar.swathAzimuthOffsetGeometricalReference)).reshape(numberOfFrames, numberOfSwaths)
rangeOffsets = self._insar.swathRangeOffsetGeometricalReference
azimuthOffsets = self._insar.swathAzimuthOffsetGeometricalReference
rangeOffsets = rangeOffsets[i]
azimuthOffsets = azimuthOffsets[i]
#list of input files
inputInterferograms = []
inputAmplitudes = []
for j, swathNumber in enumerate(
range(self._insar.startingSwath, self._insar.endingSwath + 1)):
swathDir = 's{}'.format(swathNumber)
inputInterferograms.append(
os.path.join('../', swathDir, self._insar.interferogram))
inputAmplitudes.append(
os.path.join('../', swathDir, self._insar.amplitude))
#note that frame parameters are updated after mosaicking
#mosaic amplitudes
swathMosaic(referenceTrack.frames[i],
inputAmplitudes,
self._insar.amplitude,
rangeOffsets,
azimuthOffsets,
self._insar.numberRangeLooks1,
self._insar.numberAzimuthLooks1,
resamplingMethod=0)
#mosaic interferograms
swathMosaic(referenceTrack.frames[i],
inputInterferograms,
self._insar.interferogram,
rangeOffsets,
azimuthOffsets,
self._insar.numberRangeLooks1,
self._insar.numberAzimuthLooks1,
updateFrame=True,
resamplingMethod=1)
create_xml(self._insar.amplitude,
referenceTrack.frames[i].numberOfSamples,
referenceTrack.frames[i].numberOfLines, 'amp')
create_xml(self._insar.interferogram,
referenceTrack.frames[i].numberOfSamples,
referenceTrack.frames[i].numberOfLines, 'int')
#update secondary frame parameters here
#no matching for secondary, always use geometry
rangeOffsets = self._insar.swathRangeOffsetGeometricalSecondary
azimuthOffsets = self._insar.swathAzimuthOffsetGeometricalSecondary
rangeOffsets = rangeOffsets[i]
azimuthOffsets = azimuthOffsets[i]
swathMosaicParameters(secondaryTrack.frames[i], rangeOffsets,
azimuthOffsets, self._insar.numberRangeLooks1,
self._insar.numberAzimuthLooks1)
os.chdir('../')
#save parameter file
self._insar.saveProduct(referenceTrack.frames[i],
self._insar.referenceFrameParameter)
self._insar.saveProduct(secondaryTrack.frames[i],
self._insar.secondaryFrameParameter)
os.chdir('../')
catalog.printToLog(logger, "runSwathMosaic")
self._insar.procDoc.addAllFromCatalog(catalog)
def runRgoffset(self):
numLocationAcross = self._insar.getNumberLocationAcrossPrf()
numLocationDown = self._insar.getNumberLocationDownPrf()
firstAc = self._insar.getFirstSampleAcrossPrf()
firstDown = self._insar.getFirstSampleDownPrf()
#Fake amplitude image as a complex image
imageAmp = self._insar.getResampAmpImage()
objAmp = isceobj.createImage()
objAmp.setAccessMode('read')
objAmp.dataType = 'CFLOAT'
objAmp.bands = 1
objAmp.setFilename(imageAmp.filename)
objAmp.setWidth(imageAmp.width)
objAmp.createImage()
widthAmp = objAmp.getWidth()
intLength = objAmp.getLength()
imageSim = self._insar.getSimAmpImage()
objSim = isceobj.createImage()
objSim.setFilename(imageSim.filename)
objSim.setWidth(imageSim.width)
objSim.dataType = 'FLOAT'
objSim.setAccessMode('read')
objSim.createImage()
simWidth = imageSim.getWidth()
simLength = imageSim.getLength()
fs1 = self._insar.getMasterFrame().getInstrument().getRangeSamplingRate(
) ##check
delRg1 = CN.SPEED_OF_LIGHT / (2 * fs1) ## if it's correct
objAmpcor = Ampcor(name='insarapp_intsim_ampcor')
objAmpcor.configure()
objAmpcor.setImageDataType1('real')
objAmpcor.setImageDataType2('complex')
####Adjust first and last values using window sizes
xMargin = 2 * objAmpcor.searchWindowSizeWidth + objAmpcor.windowSizeWidth
yMargin = 2 * objAmpcor.searchWindowSizeHeight + objAmpcor.windowSizeHeight
if not objAmpcor.acrossGrossOffset:
coarseAcross = 0
else:
coarseAcross = objAmpcor.acrossGrossOffset
if not objAmpcor.downGrossOffset:
coarseDown = 0
else:
coarseDown = objAmpcor.downGrossOffset
offAc = max(firstAc, -coarseAcross) + xMargin + 1
offDn = max(firstDown, -coarseDown) + yMargin + 1
lastAc = int(min(widthAmp, simWidth - offAc) - xMargin - 1)
lastDn = int(min(intLength, simLength - offDn) - yMargin - 1)
if not objAmpcor.firstSampleAcross:
objAmpcor.setFirstSampleAcross(offAc)
if not objAmpcor.lastSampleAcross:
objAmpcor.setLastSampleAcross(lastAc)
if not objAmpcor.numberLocationAcross:
objAmpcor.setNumberLocationAcross(numLocationAcross)
if not objAmpcor.firstSampleDown:
objAmpcor.setFirstSampleDown(offDn)
if not objAmpcor.lastSampleDown:
objAmpcor.setLastSampleDown(lastDn)
if not objAmpcor.numberLocationDown:
objAmpcor.setNumberLocationDown(numLocationDown)
#set the tag used in the outfile. each message is precided by this tag
#is the writer is not of "file" type the call has no effect
self._stdWriter.setFileTag("rgoffset", "log")
self._stdWriter.setFileTag("rgoffset", "err")
self._stdWriter.setFileTag("rgoffset", "out")
objAmpcor.setStdWriter(self._stdWriter)
prf = self._insar.getMasterFrame().getInstrument(
).getPulseRepetitionFrequency()
objAmpcor.setFirstPRF(prf)
objAmpcor.setSecondPRF(prf)
if not objAmpcor.acrossGrossOffset:
objAmpcor.setAcrossGrossOffset(coarseAcross)
if not objAmpcor.downGrossOffset:
objAmpcor.setDownGrossOffset(coarseDown)
objAmpcor.setFirstRangeSpacing(delRg1)
objAmpcor.setSecondRangeSpacing(delRg1)
objAmpcor.ampcor(objSim, objAmp)
# Record the inputs and outputs
from isceobj.Catalog import recordInputsAndOutputs
recordInputsAndOutputs(self._insar.procDoc, objAmpcor, "runRgoffset_ampcor", \
logger, "runRgoffset_ampcor")
self._insar.setOffsetField(objAmpcor.getOffsetField())
self._insar.setRefinedOffsetField(objAmpcor.getOffsetField())
objAmp.finalizeImage()
objSim.finalizeImage()
def estimateOffsetField(reference, secondary, inps=None):
"""Estimte offset field using PyCuAmpcor.
Parameters: reference - str, path of the reference SLC file
secondary - str, path of the secondary SLC file
inps - Namespace, input configuration
Returns: objOffset - PyCuAmpcor object
geomDict - dict, geometry location info of the offset field
"""
# update file path in xml file
if inps.fixImageXml:
for fname in [reference, secondary]:
fname = os.path.abspath(fname)
img = IML.loadImage(fname)[0]
img.filename = fname
img.setAccessMode('READ')
img.renderHdr()
if inps.fixImageVrt:
for fname in [reference, secondary]:
fname = os.path.abspath(fname)
img = IML.loadImage(fname)[0]
img.renderVRT()
###Loading the secondary image object
sim = isceobj.createSlcImage()
sim.load(secondary + '.xml')
sim.setAccessMode('READ')
sim.createImage()
###Loading the reference image object
sar = isceobj.createSlcImage()
sar.load(reference + '.xml')
sar.setAccessMode('READ')
sar.createImage()
width = sar.getWidth()
length = sar.getLength()
# create a PyCuAmpcor instance
objOffset = PyCuAmpcor()
objOffset.algorithm = inps.algorithm
objOffset.deviceID = inps.gpuid
objOffset.nStreams = inps.nstreams #cudaStreams
objOffset.derampMethod = inps.deramp
print('deramp method (0 for magnitude, 1 for complex): ',
objOffset.derampMethod)
objOffset.referenceImageName = reference + '.vrt'
objOffset.referenceImageHeight = length
objOffset.referenceImageWidth = width
objOffset.secondaryImageName = secondary + '.vrt'
objOffset.secondaryImageHeight = length
objOffset.secondaryImageWidth = width
print("image length:", length)
print("image width:", width)
# if using gross offset, adjust the margin
margin = max(inps.margin, abs(inps.azshift), abs(inps.rgshift))
# determine the number of windows down and across
# that's also the size of the output offset field
objOffset.numberWindowDown = inps.numWinDown if inps.numWinDown > 0 \
else (length-2*margin-2*inps.srchgt-inps.winhgt)//inps.skiphgt
objOffset.numberWindowAcross = inps.numWinAcross if inps.numWinAcross > 0 \
else (width-2*margin-2*inps.srcwidth-inps.winwidth)//inps.skipwidth
print('the number of windows: {} by {}'.format(
objOffset.numberWindowDown, objOffset.numberWindowAcross))
# window size
objOffset.windowSizeHeight = inps.winhgt
objOffset.windowSizeWidth = inps.winwidth
print('window size for cross-correlation: {} by {}'.format(
objOffset.windowSizeHeight, objOffset.windowSizeWidth))
# search range
objOffset.halfSearchRangeDown = inps.srchgt
objOffset.halfSearchRangeAcross = inps.srcwidth
print('initial search range: {} by {}'.format(inps.srchgt, inps.srcwidth))
# starting pixel
objOffset.referenceStartPixelDownStatic = inps.startpixeldw if inps.startpixeldw != -1 \
else margin + objOffset.halfSearchRangeDown # use margin + halfSearchRange instead
objOffset.referenceStartPixelAcrossStatic = inps.startpixelac if inps.startpixelac != -1 \
else margin + objOffset.halfSearchRangeAcross
print('the first pixel in reference image is: ({}, {})'.format(
objOffset.referenceStartPixelDownStatic,
objOffset.referenceStartPixelAcrossStatic))
# skip size
objOffset.skipSampleDown = inps.skiphgt
objOffset.skipSampleAcross = inps.skipwidth
print('search step: {} by {}'.format(inps.skiphgt, inps.skipwidth))
# oversample raw data (SLC)
objOffset.rawDataOversamplingFactor = inps.raw_oversample
# correlation surface
objOffset.corrStatWindowSize = inps.corr_stat_win_size
corr_win_size = 2 * inps.corr_srch_size * inps.raw_oversample
objOffset.corrSurfaceZoomInWindow = corr_win_size
print('correlation surface zoom-in window size:', corr_win_size)
objOffset.corrSurfaceOverSamplingMethod = inps.corr_oversamplemethod
objOffset.corrSurfaceOverSamplingFactor = inps.corr_oversample
print('correlation surface oversampling factor:', inps.corr_oversample)
# output filenames
fbase = '{}{}'.format(inps.outprefix, inps.outsuffix)
objOffset.offsetImageName = fbase + '.bip'
objOffset.grossOffsetImageName = fbase + '_gross.bip'
objOffset.snrImageName = fbase + '_snr.bip'
objOffset.covImageName = fbase + '_cov.bip'
print("offsetfield: ", objOffset.offsetImageName)
print("gross offsetfield: ", objOffset.grossOffsetImageName)
print("snr: ", objOffset.snrImageName)
print("cov: ", objOffset.covImageName)
# whether to include the gross offset in offsetImage
objOffset.mergeGrossOffset = inps.merge_gross_offset
try:
offsetImageName = objOffset.offsetImageName.decode('utf8')
grossOffsetImageName = objOffset.grossOffsetImageName.decode('utf8')
snrImageName = objOffset.snrImageName.decode('utf8')
covImageName = objOffset.covImageName.decode('utf8')
except:
offsetImageName = objOffset.offsetImageName
grossOffsetImageName = objOffset.grossOffsetImageName
snrImageName = objOffset.snrImageName
covImageName = objOffset.covImageName
# generic control
objOffset.numberWindowDownInChunk = inps.numWinDownInChunk
objOffset.numberWindowAcrossInChunk = inps.numWinAcrossInChunk
objOffset.useMmap = inps.usemmap
objOffset.mmapSize = inps.mmapsize
# setup and check parameters
objOffset.setupParams()
## Set Gross Offset ###
if inps.gross == 0: # use static grossOffset
print('Set constant grossOffset ({}, {})'.format(
inps.azshift, inps.rgshift))
objOffset.setConstantGrossOffset(inps.azshift, inps.rgshift)
else: # use varying offset
print("Set varying grossOffset from file {}".format(
inps.gross_offset_file))
grossOffset = np.fromfile(inps.gross_offset_file, dtype=np.int32)
numberWindows = objOffset.numberWindowDown * objOffset.numberWindowAcross
if grossOffset.size != 2 * numberWindows:
print((
'WARNING: The input gross offsets do not match the number of windows:'
' {} by {} in int32 type').format(
objOffset.numberWindowDown, objOffset.numberWindowAcross))
return 0
grossOffset = grossOffset.reshape(numberWindows, 2)
grossAzimuthOffset = grossOffset[:, 0]
grossRangeOffset = grossOffset[:, 1]
# enforce C-contiguous flag
grossAzimuthOffset = grossAzimuthOffset.copy(order='C')
grossRangeOffset = grossRangeOffset.copy(order='C')
# set varying gross offset
objOffset.setVaryingGrossOffset(grossAzimuthOffset, grossRangeOffset)
# check
objOffset.checkPixelInImageRange()
# save output geometry location info
geomDict = {
'x_start':
objOffset.referenceStartPixelAcrossStatic +
int(objOffset.windowSizeWidth / 2.),
'y_start':
objOffset.referenceStartPixelDownStatic +
int(objOffset.windowSizeHeight / 2.),
'x_step':
objOffset.skipSampleAcross,
'y_step':
objOffset.skipSampleDown,
'x_win_num':
objOffset.numberWindowAcross,
'y_win_num':
objOffset.numberWindowDown,
}
# check redo
print('redo: ', inps.redo)
if not inps.redo:
offsetImageName = '{}{}.bip'.format(inps.outprefix, inps.outsuffix)
if os.path.exists(offsetImageName):
print(
'offset field file: {} exists and w/o redo, skip re-estimation.'
.format(offsetImageName))
return objOffset, geomDict
# Run the code
print('Running PyCuAmpcor')
objOffset.runAmpcor()
print('Finished')
sar.finalizeImage()
sim.finalizeImage()
# Finalize the results
# offsetfield
outImg = isceobj.createImage()
outImg.setDataType('FLOAT')
outImg.setFilename(offsetImageName)
outImg.setBands(2)
outImg.scheme = 'BIP'
outImg.setWidth(objOffset.numberWindowAcross)
outImg.setLength(objOffset.numberWindowDown)
outImg.setAccessMode('read')
outImg.renderHdr()
# gross offsetfield
outImg = isceobj.createImage()
outImg.setDataType('FLOAT')
outImg.setFilename(grossOffsetImageName)
outImg.setBands(2)
outImg.scheme = 'BIP'
outImg.setWidth(objOffset.numberWindowAcross)
outImg.setLength(objOffset.numberWindowDown)
outImg.setAccessMode('read')
outImg.renderHdr()
# snr
snrImg = isceobj.createImage()
snrImg.setFilename(snrImageName)
snrImg.setDataType('FLOAT')
snrImg.setBands(1)
snrImg.setWidth(objOffset.numberWindowAcross)
snrImg.setLength(objOffset.numberWindowDown)
snrImg.setAccessMode('read')
snrImg.renderHdr()
# cov
covImg = isceobj.createImage()
covImg.setFilename(covImageName)
covImg.setDataType('FLOAT')
covImg.setBands(3)
covImg.scheme = 'BIP'
covImg.setWidth(objOffset.numberWindowAcross)
covImg.setLength(objOffset.numberWindowDown)
covImg.setAccessMode('read')
covImg.renderHdr()
return objOffset, geomDict
def genFinalMask(mName, width):
print('\nReading and combining masks...')
with open('tsnbMaskImg.bil', 'rb') as fid:
arr = np.fromfile(fid, dtype='float32').reshape(-1, width)
tsnbHist = plt.hist(arr.flatten(),
bins=256)[0][1:] # histogram of values 1-256 in mask
plt.close()
tVals = sum(tsnbHist)
for i in range(1, 256):
if ((sum(tsnbHist[255 - i:]) / tVals) > 0.8
): # Looking to eliminate first sigma of values (just a guess)
TSNBthresh = 254 - i # set threshold
break
print('TSNB threshold cutoff set as:', TSNBthresh)
arr2 = (arr > TSNBthresh).astype(int)
with open('tvwbMaskImg.bil', 'rb') as fid:
tarr = np.transpose(
np.fromfile(fid, dtype='float32').reshape(-1, len(arr)))
tvwbHist = plt.hist(tarr.flatten(),
bins=100)[0][1:] # histogram of values 1-100 in mask
plt.close()
tVals = sum(tvwbHist)
for i in range(1, 100):
if ((sum(tvwbHist[99 - i:]) / tVals) > 0.8):
TVWBthresh = 98 - i
break
print('TVWB threshold cutoff set as:', TVWBthresh)
tarr2 = (tarr > TVWBthresh).astype(int)
fArr = arr2 | tarr2 # Combine masks
print('\nPrinting combined and separate masks to', mName, '...')
# Mask channels as follows:
# CH 1: Final mask used (combined and thresholded TSNB/TVWB masks)
# CH 2: TSNB mask pre-threshold
# CH 3: TSNB mask thresholded
# CH 4: TVWB mask pre-threshold
# CH 5: TVWB mask thresholded
fMaskImg = isceobj.createImage()
fMaskImg.bands = 5
fMaskImg.scheme = 'BIL'
fMaskImg.dataType = 'FLOAT'
fMaskImg.setWidth(len(fArr[0]))
fMaskImg.setLength(len(fArr))
fMaskImg.setFilename(mName)
with open(mName, 'wb') as fid:
for i in range(len(fArr)):
fArr[i].astype(np.float32).tofile(fid) # CH 1
arr[i].astype(np.float32).tofile(fid) # CH 2
arr2[i].astype(np.float32).tofile(fid) # CH 3
tarr[i].astype(np.float32).tofile(fid) # CH 4
tarr2[i].astype(np.float32).tofile(fid) # CH 5
fMaskImg.renderHdr()
print('Finished.')
# finalRFImasks.bil will contain all masks, so no need for these anymore...
os.remove('tsnbMaskImg.bil')
os.remove('tsnbMaskImg.bil.xml')
os.remove('tvwbMaskImg.bil')
os.remove('tvwbMaskImg.bil.xml')
return fArr, np.sum(arr2), np.sum(tarr2)
def estimateOffsetField(burst, simfile,offset=0.0):
'''
Estimate offset field between burst and simamp.
'''
sim = isceobj.createImage()
sim.load(simfile+'.xml')
sim.setAccessMode('READ')
sim.createImage()
sar = isceobj.createSlcImage()
sar.load(burst.getImage().filename + '.xml')
sar.setAccessMode('READ')
sar.createImage()
width = sar.getWidth()
length = sar.getLength()
objOffset = Ampcor(name='reference_offset')
objOffset.configure()
objOffset.setWindowSizeWidth(128)
objOffset.setWindowSizeHeight(128)
objOffset.setSearchWindowSizeWidth(16)
objOffset.setSearchWindowSizeHeight(16)
margin = 2*objOffset.searchWindowSizeWidth + objOffset.windowSizeWidth
nAcross = 40
nDown = 40
if not objOffset.firstSampleAcross:
objOffset.setFirstSampleAcross(margin+101)
if not objOffset.lastSampleAcross:
objOffset.setLastSampleAcross(width-margin-101)
if not objOffset.firstSampleDown:
objOffset.setFirstSampleDown(margin+offset+101)
if not objOffset.lastSampleDown:
objOffset.setLastSampleDown(length - margin-101)
if not objOffset.acrossGrossOffset:
objOffset.setAcrossGrossOffset(0.0)
if not objOffset.downGrossOffset:
objOffset.setDownGrossOffset(offset)
if not objOffset.numberLocationAcross:
objOffset.setNumberLocationAcross(nAcross)
if not objOffset.numberLocationDown:
objOffset.setNumberLocationDown(nDown)
objOffset.setFirstPRF(1.0)
objOffset.setSecondPRF(1.0)
objOffset.setImageDataType1('complex')
objOffset.setImageDataType2('real')
objOffset.ampcor(sar, sim)
sar.finalizeImage()
sim.finalizeImage()
result = objOffset.getOffsetField()
return result
if not os.path.isdir(params['intdir']):
os.system('mkdir ' + params['intdir'])
msk_filt = cv2.filter2D(gamma0, -1, win)
pair = params['pairs'][0]
for pair in params['pairs']: #loop through each ifg and save to
if not os.path.isdir(params['intdir'] + '/' + pair):
os.system('mkdir ' + params['intdir'] + '/' + pair)
if not os.path.isfile(params['intdir'] + '/' + pair + '/fine_lk.int'):
print('working on ' + pair)
#Open a file to save stuff to
out = isceobj.createImage() # Copy the interferogram image from before
out.dataType = 'CFLOAT'
out.filename = params['intdir'] + '/' + pair + '/fine_lk.int'
out.width = params['nxl']
out.length = params['nyl']
out.dump(out.filename + '.xml') # Write out xml
fid = open(out.filename, "ab+")
# open a cor file too
outc = isceobj.createImage(
) # Copy the interferogram image from before
outc.dataType = 'FLOAT'
outc.filename = params['intdir'] + '/' + pair + '/cor_lk.r4'
outc.width = params['nxl']
outc.length = params['nyl']
outc.dump(outc.filename + '.xml') # Write out xml
def main(iargs=None):
'''
'''
inps = cmdLineParse(iargs)
# #convert 1-d list to 2-d list
# if len(inps.masked_areas) % 4 != 0:
# raise Exception('each maksed area must have four elements')
# else:
# masked_areas = []
# n = np.int32(len(inps.masked_areas)/4)
# for i in range(n):
# masked_areas.append([inps.masked_areas[i*4+0], inps.masked_areas[i*4+1], inps.masked_areas[i*4+2], inps.masked_areas[i*4+3]])
# inps.masked_areas = masked_areas
###################################
#SET PARAMETERS HERE
#THESE SHOULD BE GOOD ENOUGH, NO NEED TO SET IN setup(self)
corThresholdAdj = 0.85
###################################
print('computing ionosphere')
#get files
lowerUnwfile = inps.lower
upperUnwfile = inps.upper
corfile = inps.coherence
#use image size from lower unwrapped interferogram
img = isceobj.createImage()
img.load(lowerUnwfile + '.xml')
width = img.width
length = img.length
lowerUnw = (np.fromfile(lowerUnwfile, dtype=np.float32).reshape(
length * 2, width))[1:length * 2:2, :]
upperUnw = (np.fromfile(upperUnwfile, dtype=np.float32).reshape(
length * 2, width))[1:length * 2:2, :]
#lowerAmp = (np.fromfile(lowerUnwfile, dtype=np.float32).reshape(length*2, width))[0:length*2:2, :]
#upperAmp = (np.fromfile(upperUnwfile, dtype=np.float32).reshape(length*2, width))[0:length*2:2, :]
cor = (np.fromfile(corfile,
dtype=np.float32).reshape(length * 2,
width))[1:length * 2:2, :]
#amp = np.sqrt(lowerAmp**2+upperAmp**2)
amp = (np.fromfile(corfile,
dtype=np.float32).reshape(length * 2,
width))[0:length * 2:2, :]
#masked out user-specified areas
if inps.masked_areas != None:
maskedAreas = reformatMaskedAreas(inps.masked_areas, length, width)
for area in maskedAreas:
lowerUnw[area[0]:area[1], area[2]:area[3]] = 0
upperUnw[area[0]:area[1], area[2]:area[3]] = 0
cor[area[0]:area[1], area[2]:area[3]] = 0
ionParamObj = ionParam()
ionParamObj.configure()
#compute ionosphere
fl = SPEED_OF_LIGHT / ionParamObj.radarWavelengthLower
fu = SPEED_OF_LIGHT / ionParamObj.radarWavelengthUpper
adjFlag = 1
ionos = computeIonosphere(lowerUnw, upperUnw, cor, fl, fu, adjFlag,
corThresholdAdj, 0)
#dump ionosphere
outFilename = inps.ionosphere
os.makedirs(os.path.dirname(inps.ionosphere), exist_ok=True)
ion = np.zeros((length * 2, width), dtype=np.float32)
ion[0:length * 2:2, :] = amp
ion[1:length * 2:2, :] = ionos
ion.astype(np.float32).tofile(outFilename)
img.filename = outFilename
img.extraFilename = outFilename + '.vrt'
img.renderHdr()
#dump coherence
outFilename = inps.coherence_output
os.makedirs(os.path.dirname(inps.coherence_output), exist_ok=True)
ion[1:length * 2:2, :] = cor
ion.astype(np.float32).tofile(outFilename)
img.filename = outFilename
img.extraFilename = outFilename + '.vrt'
img.renderHdr()
def main(iargs=None):
'''Compute baseline.
'''
inps = cmdLineParse(iargs)
from isceobj.Planet.Planet import Planet
from isceobj.Util.Poly2D import Poly2D
import numpy as np
import shelve
baselineDir = os.path.dirname(inps.baselineFile)
if baselineDir != '':
os.makedirs(baselineDir, exist_ok=True)
with shelve.open(os.path.join(inps.reference, 'data'), flag='r') as mdb:
reference = mdb['frame']
with shelve.open(os.path.join(inps.secondary, 'data'), flag='r') as mdb:
secondary = mdb['frame']
# check if the reference and secondary shelf are the same, i.e. it is baseline grid for the reference
reference_SensingStart = reference.getSensingStart()
secondary_SensingStart = secondary.getSensingStart()
if reference_SensingStart == secondary_SensingStart:
referenceBaseline = True
else:
referenceBaseline = False
refElp = Planet(pname='Earth').ellipsoid
dr = reference.instrument.rangePixelSize
dt = 1. / reference.PRF #reference.azimuthTimeInterval
mStartingRange = reference.startingRange #min([x.startingRange for x in referenceswaths])
mFarRange = reference.startingRange + dr * (
reference.numberOfSamples - 1
) #max([x.farRange for x in referenceswaths])
mSensingStart = reference.sensingStart # min([x.sensingStart for x in referenceswaths])
mSensingStop = reference.sensingStop #max([x.sensingStop for x in referenceswaths])
mOrb = getMergedOrbit(reference)
nPixels = int(np.round((mFarRange - mStartingRange) / dr)) + 1
nLines = int(np.round(
(mSensingStop - mSensingStart).total_seconds() / dt)) + 1
sOrb = getMergedOrbit(secondary)
rangeLimits = mFarRange - mStartingRange
# To make sure that we have at least 30 points
nRange = int(np.max([30, int(np.ceil(rangeLimits / 7000.))]))
slantRange = mStartingRange + np.arange(nRange) * rangeLimits / (nRange -
1.0)
azimuthLimits = (mSensingStop - mSensingStart).total_seconds()
nAzimuth = int(np.max([30, int(np.ceil(azimuthLimits))]))
azimuthTime = [
mSensingStart + datetime.timedelta(seconds=x * azimuthLimits /
(nAzimuth - 1.0))
for x in range(nAzimuth)
]
doppler = Poly2D()
doppler.initPoly(azimuthOrder=0, rangeOrder=0, coeffs=[[0.]])
Bperp = np.zeros((nAzimuth, nRange), dtype=np.float32)
Bpar = np.zeros((nAzimuth, nRange), dtype=np.float32)
fid = open(inps.baselineFile, 'wb')
print('Baseline file {0} dims: {1}L x {2}P'.format(inps.baselineFile,
nAzimuth, nRange))
if referenceBaseline:
Bperp = np.zeros((nAzimuth, nRange), dtype=np.float32)
Bperp.tofile(fid)
else:
for ii, taz in enumerate(azimuthTime):
referenceSV = mOrb.interpolate(taz, method='hermite')
mxyz = np.array(referenceSV.getPosition())
mvel = np.array(referenceSV.getVelocity())
for jj, rng in enumerate(slantRange):
target = mOrb.rdr2geo(taz, rng)
targxyz = np.array(
refElp.LLH(target[0], target[1],
target[2]).ecef().tolist())
slvTime, slvrng = sOrb.geo2rdr(target, doppler=doppler, wvl=0)
secondarySV = sOrb.interpolateOrbit(slvTime, method='hermite')
sxyz = np.array(secondarySV.getPosition())
aa = np.linalg.norm(sxyz - mxyz)
costheta = (rng * rng + aa * aa - slvrng * slvrng) / (2. *
rng * aa)
Bpar[ii, jj] = aa * costheta
perp = aa * np.sqrt(1 - costheta * costheta)
direction = np.sign(
np.dot(np.cross(targxyz - mxyz, sxyz - mxyz), mvel))
Bperp[ii, jj] = direction * perp
Bperp.tofile(fid)
fid.close()
####Write XML
img = isceobj.createImage()
img.setFilename(inps.baselineFile)
img.bands = 1
img.scheme = 'BIP'
img.dataType = 'FLOAT'
img.setWidth(nRange)
img.setAccessMode('READ')
img.setLength(nAzimuth)
img.renderHdr()
img.renderVRT()
###Create oversampled VRT file
cmd = 'gdal_translate -of VRT -ot Float32 -r bilinear -outsize {xsize} {ysize} {infile}.vrt {infile}.full.vrt'.format(
xsize=nPixels, ysize=nLines, infile=inps.baselineFile)
status = os.system(cmd)
if status:
raise Exception('cmd: {0} Failed'.format(cmd))
def runSlcOffset(self):
'''estimate SLC offsets
'''
catalog = isceobj.Catalog.createCatalog(self._insar.procDoc.name)
self.updateParamemetersFromUser()
masterTrack = self._insar.loadTrack(master=True)
slaveTrack = self._insar.loadTrack(master=False)
demFile = os.path.abspath(self._insar.dem)
wbdFile = os.path.abspath(self._insar.wbd)
for i, frameNumber in enumerate(self._insar.masterFrames):
frameDir = 'f{}_{}'.format(i+1, frameNumber)
os.chdir(frameDir)
for j, swathNumber in enumerate(range(self._insar.startingSwath, self._insar.endingSwath + 1)):
swathDir = 's{}'.format(swathNumber)
os.chdir(swathDir)
print('estimating offset frame {}, swath {}'.format(frameNumber, swathNumber))
masterSwath = masterTrack.frames[i].swaths[j]
slaveSwath = slaveTrack.frames[i].swaths[j]
##########################################
#1. set number of matching points
##########################################
#set initinial numbers
if (self._insar.modeCombination == 21) or (self._insar.modeCombination == 22):
numberOfOffsetsRange = 10
numberOfOffsetsAzimuth = 40
else:
numberOfOffsetsRange = 20
numberOfOffsetsAzimuth = 20
#change the initial numbers using water body
if self.useWbdForNumberOffsets and (self._insar.wbd != None):
numberRangeLooks=100
numberAzimuthLooks=100
#compute land ratio using topo module
topo(masterSwath, masterTrack, demFile, 'lat.rdr', 'lon.rdr', 'hgt.rdr', losFile='los.rdr',
incFile=None, mskFile=None,
numberRangeLooks=numberRangeLooks, numberAzimuthLooks=numberAzimuthLooks, multilookTimeOffset=False)
waterBodyRadar('lat.rdr', 'lon.rdr', wbdFile, 'wbd.rdr')
wbdImg = isceobj.createImage()
wbdImg.load('wbd.rdr.xml')
width = wbdImg.width
length = wbdImg.length
wbd = np.fromfile('wbd.rdr', dtype=np.byte).reshape(length, width)
landRatio = np.sum(wbd==0) / (length*width)
if (landRatio <= 0.00125):
print('\n\nWARNING: land too small for estimating slc offsets at frame {}, swath {}'.format(frameNumber, swathNumber))
print('proceed to use geometric offsets for forming interferogram')
print('but please consider not using this swath\n\n')
catalog.addItem('warning message', 'land too small for estimating slc offsets at frame {}, swath {}, use geometric offsets'.format(frameNumber, swathNumber), 'runSlcOffset')
#compute geomtricla offsets
geo2rdr(slaveSwath, slaveTrack, 'lat.rdr', 'lon.rdr', 'hgt.rdr', 'rg.rdr', 'az.rdr', numberRangeLooks=numberRangeLooks, numberAzimuthLooks=numberAzimuthLooks, multilookTimeOffset=False)
reformatGeometricalOffset('rg.rdr', 'az.rdr', 'cull.off', rangeStep=numberRangeLooks, azimuthStep=numberAzimuthLooks, maximumNumberOfOffsets=2000)
os.remove('lat.rdr')
os.remove('lat.rdr.vrt')
os.remove('lat.rdr.xml')
os.remove('lon.rdr')
os.remove('lon.rdr.vrt')
os.remove('lon.rdr.xml')
os.remove('hgt.rdr')
os.remove('hgt.rdr.vrt')
os.remove('hgt.rdr.xml')
os.remove('los.rdr')
os.remove('los.rdr.vrt')
os.remove('los.rdr.xml')
os.remove('wbd.rdr')
os.remove('wbd.rdr.vrt')
os.remove('wbd.rdr.xml')
os.remove('rg.rdr')
os.remove('rg.rdr.vrt')
os.remove('rg.rdr.xml')
os.remove('az.rdr')
os.remove('az.rdr.vrt')
os.remove('az.rdr.xml')
os.chdir('../')
continue
os.remove('lat.rdr')
os.remove('lat.rdr.vrt')
os.remove('lat.rdr.xml')
os.remove('lon.rdr')
os.remove('lon.rdr.vrt')
os.remove('lon.rdr.xml')
os.remove('hgt.rdr')
os.remove('hgt.rdr.vrt')
os.remove('hgt.rdr.xml')
os.remove('los.rdr')
os.remove('los.rdr.vrt')
os.remove('los.rdr.xml')
os.remove('wbd.rdr')
os.remove('wbd.rdr.vrt')
os.remove('wbd.rdr.xml')
#put the results on a grid with a specified interval
interval = 0.2
axisRatio = int(np.sqrt(landRatio)/interval)*interval + interval
if axisRatio > 1:
axisRatio = 1
numberOfOffsetsRange = int(numberOfOffsetsRange/axisRatio)
numberOfOffsetsAzimuth = int(numberOfOffsetsAzimuth/axisRatio)
else:
catalog.addItem('warning message', 'no water mask used to determine number of matching points. frame {} swath {}'.format(frameNumber, swathNumber), 'runSlcOffset')
#user's settings
if self.numberRangeOffsets != None:
numberOfOffsetsRange = self.numberRangeOffsets[i][j]
if self.numberAzimuthOffsets != None:
numberOfOffsetsAzimuth = self.numberAzimuthOffsets[i][j]
catalog.addItem('number of offsets range frame {} swath {}'.format(frameNumber, swathNumber), numberOfOffsetsRange, 'runSlcOffset')
catalog.addItem('number of offsets azimuth frame {} swath {}'.format(frameNumber, swathNumber), numberOfOffsetsAzimuth, 'runSlcOffset')
##########################################
#2. match using ampcor
##########################################
ampcor = Ampcor(name='insarapp_slcs_ampcor')
ampcor.configure()
mSLC = isceobj.createSlcImage()
mSLC.load(self._insar.masterSlc+'.xml')
mSLC.setAccessMode('read')
mSLC.createImage()
sSLC = isceobj.createSlcImage()
sSLC.load(self._insar.slaveSlc+'.xml')
sSLC.setAccessMode('read')
sSLC.createImage()
ampcor.setImageDataType1('complex')
ampcor.setImageDataType2('complex')
ampcor.setMasterSlcImage(mSLC)
ampcor.setSlaveSlcImage(sSLC)
#MATCH REGION
#compute an offset at image center to use
rgoff, azoff = computeOffsetFromOrbit(masterSwath, masterTrack, slaveSwath, slaveTrack,
masterSwath.numberOfSamples * 0.5,
masterSwath.numberOfLines * 0.5)
#it seems that we cannot use 0, haven't look into the problem
if rgoff == 0:
rgoff = 1
if azoff == 0:
azoff = 1
firstSample = 1
if rgoff < 0:
firstSample = int(35 - rgoff)
firstLine = 1
if azoff < 0:
firstLine = int(35 - azoff)
ampcor.setAcrossGrossOffset(rgoff)
ampcor.setDownGrossOffset(azoff)
ampcor.setFirstSampleAcross(firstSample)
ampcor.setLastSampleAcross(mSLC.width)
ampcor.setNumberLocationAcross(numberOfOffsetsRange)
ampcor.setFirstSampleDown(firstLine)
ampcor.setLastSampleDown(mSLC.length)
ampcor.setNumberLocationDown(numberOfOffsetsAzimuth)
#MATCH PARAMETERS
#full-aperture mode
if (self._insar.modeCombination == 21) or \
(self._insar.modeCombination == 22) or \
(self._insar.modeCombination == 31) or \
(self._insar.modeCombination == 32):
ampcor.setWindowSizeWidth(64)
ampcor.setWindowSizeHeight(512)
#note this is the half width/length of search area, number of resulting correlation samples: 32*2+1
ampcor.setSearchWindowSizeWidth(32)
ampcor.setSearchWindowSizeHeight(32)
#triggering full-aperture mode matching
ampcor.setWinsizeFilt(8)
ampcor.setOversamplingFactorFilt(64)
#regular mode
else:
ampcor.setWindowSizeWidth(64)
ampcor.setWindowSizeHeight(64)
ampcor.setSearchWindowSizeWidth(32)
ampcor.setSearchWindowSizeHeight(32)
#REST OF THE STUFF
ampcor.setAcrossLooks(1)
ampcor.setDownLooks(1)
ampcor.setOversamplingFactor(64)
ampcor.setZoomWindowSize(16)
#1. The following not set
#Matching Scale for Sample/Line Directions (-) = 1. 1.
#should add the following in Ampcor.py?
#if not set, in this case, Ampcor.py'value is also 1. 1.
#ampcor.setScaleFactorX(1.)
#ampcor.setScaleFactorY(1.)
#MATCH THRESHOLDS AND DEBUG DATA
#2. The following not set
#in roi_pac the value is set to 0 1
#in isce the value is set to 0.001 1000.0
#SNR and Covariance Thresholds (-) = {s1} {s2}
#should add the following in Ampcor?
#THIS SHOULD BE THE ONLY THING THAT IS DIFFERENT FROM THAT OF ROI_PAC
#ampcor.setThresholdSNR(0)
#ampcor.setThresholdCov(1)
ampcor.setDebugFlag(False)
ampcor.setDisplayFlag(False)
#in summary, only two things not set which are indicated by 'The following not set' above.
#run ampcor
ampcor.ampcor()
offsets = ampcor.getOffsetField()
ampcorOffsetFile = 'ampcor.off'
writeOffset(offsets, ampcorOffsetFile)
#finalize image, and re-create it
#otherwise the file pointer is still at the end of the image
mSLC.finalizeImage()
sSLC.finalizeImage()
##########################################
#3. cull offsets
##########################################
refinedOffsets = cullOffsets(offsets)
if refinedOffsets == None:
print('******************************************************************')
print('WARNING: There are not enough offsets left, so we are forced to')
print(' use offset without culling. frame {}, swath {}'.format(frameNumber, swathNumber))
print('******************************************************************')
catalog.addItem('warning message', 'not enough offsets left, use offset without culling. frame {} swath {}'.format(frameNumber, swathNumber), 'runSlcOffset')
refinedOffsets = offsets
cullOffsetFile = 'cull.off'
writeOffset(refinedOffsets, cullOffsetFile)
os.chdir('../')
os.chdir('../')
catalog.printToLog(logger, "runSlcOffset")
self._insar.procDoc.addAllFromCatalog(catalog)
def geo2RdrGPU(slaveTrack, numberRangeLooks, numberAzimuthLooks, latFile,
lonFile, hgtFile, rangeOffsetFile, azimuthOffsetFile):
'''
currently we cannot set left/right looking.
works for right looking, but left looking probably not supported.
'''
import datetime
from zerodop.GPUgeo2rdr.GPUgeo2rdr import PyGeo2rdr
from isceobj.Planet.Planet import Planet
from iscesys import DateTimeUtil as DTU
latImage = isceobj.createImage()
latImage.load(latFile + '.xml')
latImage.setAccessMode('READ')
latImage.createImage()
lonImage = isceobj.createImage()
lonImage.load(lonFile + '.xml')
lonImage.setAccessMode('READ')
lonImage.createImage()
demImage = isceobj.createImage()
demImage.load(hgtFile + '.xml')
demImage.setAccessMode('READ')
demImage.createImage()
#####Run Geo2rdr
planet = Planet(pname='Earth')
grdr = PyGeo2rdr()
grdr.setRangePixelSpacing(numberRangeLooks * slaveTrack.rangePixelSize)
grdr.setPRF(1.0 / (numberAzimuthLooks * slaveTrack.azimuthLineInterval))
grdr.setRadarWavelength(slaveTrack.radarWavelength)
#CHECK IF THIS WORKS!!!
grdr.createOrbit(0, len(slaveTrack.orbit.stateVectors.list))
count = 0
for sv in slaveTrack.orbit.stateVectors.list:
td = DTU.seconds_since_midnight(sv.getTime())
pos = sv.getPosition()
vel = sv.getVelocity()
grdr.setOrbitVector(count, td, pos[0], pos[1], pos[2], vel[0], vel[1],
vel[2])
count += 1
grdr.setOrbitMethod(0)
grdr.setWidth(slaveTrack.numberOfSamples)
grdr.setLength(slaveTrack.numberOfLines)
grdr.setSensingStart(
DTU.seconds_since_midnight(slaveTrack.sensingStart +
datetime.timedelta(
seconds=(numberAzimuthLooks - 1.0) /
2.0 * slaveTrack.azimuthLineInterval)))
grdr.setRangeFirstSample(slaveTrack.startingRange +
(numberRangeLooks - 1.0) / 2.0 *
slaveTrack.rangePixelSize)
grdr.setNumberRangeLooks(1)
grdr.setNumberAzimuthLooks(1)
grdr.setEllipsoidMajorSemiAxis(planet.ellipsoid.a)
grdr.setEllipsoidEccentricitySquared(planet.ellipsoid.e2)
grdr.createPoly(0, 0., 1.)
grdr.setPolyCoeff(0, 0.)
grdr.setDemLength(demImage.getLength())
grdr.setDemWidth(demImage.getWidth())
grdr.setBistaticFlag(0)
rangeOffsetImage = isceobj.createImage()
rangeOffsetImage.setFilename(rangeOffsetFile)
rangeOffsetImage.setAccessMode('write')
rangeOffsetImage.setDataType('FLOAT')
rangeOffsetImage.setCaster('write', 'DOUBLE')
rangeOffsetImage.setWidth(demImage.width)
rangeOffsetImage.createImage()
azimuthOffsetImage = isceobj.createImage()
azimuthOffsetImage.setFilename(azimuthOffsetFile)
azimuthOffsetImage.setAccessMode('write')
azimuthOffsetImage.setDataType('FLOAT')
azimuthOffsetImage.setCaster('write', 'DOUBLE')
azimuthOffsetImage.setWidth(demImage.width)
azimuthOffsetImage.createImage()
grdr.setLatAccessor(latImage.getImagePointer())
grdr.setLonAccessor(lonImage.getImagePointer())
grdr.setHgtAccessor(demImage.getImagePointer())
grdr.setAzAccessor(0)
grdr.setRgAccessor(0)
grdr.setAzOffAccessor(azimuthOffsetImage.getImagePointer())
grdr.setRgOffAccessor(rangeOffsetImage.getImagePointer())
grdr.geo2rdr()
rangeOffsetImage.finalizeImage()
rangeOffsetImage.renderHdr()
azimuthOffsetImage.finalizeImage()
azimuthOffsetImage.renderHdr()
latImage.finalizeImage()
lonImage.finalizeImage()
demImage.finalizeImage()
return
def _run_ampcor(self, firstAc, lastAc, firstDn, lastDn, numAc, numDn,
firstind, lastind):
'''
Individual calls to ampcor.
'''
objAmpcor = Ampcor()
objAmpcor.setWindowSizeWidth(self.windowSizeWidth)
objAmpcor.setWindowSizeHeight(self.windowSizeHeight)
objAmpcor.setSearchWindowSizeWidth(self.searchWindowSizeWidth)
objAmpcor.setSearchWindowSizeHeight(self.searchWindowSizeHeight)
objAmpcor.setImageDataType1(self.imageDataType1)
objAmpcor.setImageDataType2(self.imageDataType2)
objAmpcor.setFirstSampleAcross(firstAc)
objAmpcor.setLastSampleAcross(lastAc)
objAmpcor.setNumberLocationAcross(numAc)
objAmpcor.setFirstSampleDown(firstDn)
objAmpcor.setLastSampleDown(lastDn)
objAmpcor.setNumberLocationDown(numDn)
objAmpcor.setAcrossGrossOffset(self.acrossGrossOffset)
objAmpcor.setDownGrossOffset(self.downGrossOffset)
objAmpcor.setFirstPRF(self.prf1)
objAmpcor.setSecondPRF(self.prf2)
objAmpcor.setFirstRangeSpacing(self.rangeSpacing1)
objAmpcor.setSecondRangeSpacing(self.rangeSpacing2)
objAmpcor.thresholdSNR = 1.0e-6
objAmpcor.thresholdCov = self.thresholdCov
mSlc = isceobj.createImage()
IU.copyAttributes(self.slcImage1, mSlc)
mSlc.setAccessMode('read')
mSlc.createImage()
sSlc = isceobj.createImage()
IU.copyAttributes(self.slcImage2, sSlc)
sSlc.setAccessMode('read')
sSlc.createImage()
objAmpcor.ampcor(mSlc, sSlc)
mSlc.finalizeImage()
sSlc.finalizeImage()
j = 0
length = len(objAmpcor.locationDown)
for i in range(lastind - firstind):
acInd = firstAc + self.pixLocOffAc + (
i % numAc) * self.skipSampleAcross
downInd = firstDn + self.pixLocOffDn + (
i // numAc) * self.skipSampleDown
if j < length and objAmpcor.locationDown[
j] == downInd and objAmpcor.locationAcross[j] == acInd:
self.locationDown[firstind + i] = objAmpcor.locationDown[j]
self.locationDownOffset[firstind +
i] = objAmpcor.locationDownOffset[j]
self.locationAcross[firstind + i] = objAmpcor.locationAcross[j]
self.locationAcrossOffset[
firstind + i] = objAmpcor.locationAcrossOffset[j]
self.snr[firstind + i] = objAmpcor.snrRet[j]
j += 1
else:
self.locationDown[firstind + i] = downInd
self.locationDownOffset[firstind + i] = -10000.
self.locationAcross[firstind + i] = acInd
self.locationAcrossOffset[firstind + i] = -10000.
self.snr[firstind + i] = 0.
return
geom['lon_ifg'] = lo
geom['lat_ifg'] = la
geom['hgt_ifg'] = hgt
np.save('geom_2.npy', geom)
params['nxl'] = nxl2
params['nyl'] = nyl2
params['ymin'] = 0
params['ymax'] = nyl2
np.save('params_2.npy', params)
# crop ints
for pair in params['pairs']:
infile = params['intdir'] + '/' + pair + '/fine_lk.r4'
outfile = params['intdir'] + '/' + pair + '/fine_lk_crop.r4'
i = isceobj.createImage()
i.load(infile + '.xml')
i1 = i.memMap()[:, :, 0]
i2 = i1[y1:y2, x1:x2]
# Write out the xml file for the cropped ifg
out = i.clone() # Copy the interferogram image from before
out.filename = outfile
out.width = nxl2
out.length = nyl2
out.dump(outfile + '.xml') # Write out xml
i2.tofile(outfile)
out.renderHdr()
out.renderVRT()
# crop cor files
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 swathMosaic(frame,
inputFiles,
outputfile,
rangeOffsets,
azimuthOffsets,
numberOfRangeLooks,
numberOfAzimuthLooks,
updateFrame=False,
phaseCompensation=False,
phaseDiff=None,
phaseDiffFixed=None,
snapThreshold=None,
pcRangeLooks=1,
pcAzimuthLooks=4,
filt=False,
resamplingMethod=0):
'''
mosaic swaths
#PART 1. REGULAR INPUT PARAMTERS
frame: frame
inputFiles: input file list
outputfile: output mosaic file
rangeOffsets: range offsets
azimuthOffsets: azimuth offsets
numberOfRangeLooks: number of range looks of the input files
numberOfAzimuthLooks: number of azimuth looks of the input files
updateFrame: whether update frame parameters
#PART 2. PARAMETERS FOR COMPUTING PHASE DIFFERENCE BETWEEN SUBSWATHS
phaseCompensation: whether do phase compensation for each swath
phaseDiff: pre-computed compensation phase for each swath
phaseDiffFixed: if provided, the estimated value will snap to one of these values, which is nearest to the estimated one.
snapThreshold: this is used with phaseDiffFixed
pcRangeLooks: number of range looks to take when compute swath phase difference
pcAzimuthLooks: number of azimuth looks to take when compute swath phase difference
filt: whether do filtering when compute swath phase difference
#PART 3. RESAMPLING METHOD
resamplingMethod: 0: amp resampling. 1: int resampling.
'''
from contrib.alos2proc_f.alos2proc_f import rect_with_looks
from contrib.alos2proc.alos2proc import mosaicsubswath
from isceobj.Alos2Proc.Alos2ProcPublic import multilook
from isceobj.Alos2Proc.Alos2ProcPublic import cal_coherence_1
from isceobj.Alos2Proc.Alos2ProcPublic import filterInterferogram
numberOfSwaths = len(frame.swaths)
swaths = frame.swaths
rangeScale = []
azimuthScale = []
rectWidth = []
rectLength = []
for i in range(numberOfSwaths):
rangeScale.append(swaths[0].rangePixelSize / swaths[i].rangePixelSize)
azimuthScale.append(swaths[0].azimuthLineInterval /
swaths[i].azimuthLineInterval)
if i == 0:
rectWidth.append(
int(swaths[i].numberOfSamples / numberOfRangeLooks))
rectLength.append(
int(swaths[i].numberOfLines / numberOfAzimuthLooks))
else:
rectWidth.append(
int(1.0 / rangeScale[i] *
int(swaths[i].numberOfSamples / numberOfRangeLooks)))
rectLength.append(
int(1.0 / azimuthScale[i] *
int(swaths[i].numberOfLines / numberOfAzimuthLooks)))
#convert original offset to offset for images with looks
#use list instead of np.array to make it consistent with the rest of the code
rangeOffsets1 = [i / numberOfRangeLooks for i in rangeOffsets]
azimuthOffsets1 = [i / numberOfAzimuthLooks for i in azimuthOffsets]
#get offset relative to the first frame
rangeOffsets2 = [0.0]
azimuthOffsets2 = [0.0]
for i in range(1, numberOfSwaths):
rangeOffsets2.append(0.0)
azimuthOffsets2.append(0.0)
for j in range(1, i + 1):
rangeOffsets2[i] += rangeOffsets1[j]
azimuthOffsets2[i] += azimuthOffsets1[j]
#resample each swath
rinfs = []
for i, inf in enumerate(inputFiles):
rinfs.append("{}_{}{}".format(
os.path.splitext(os.path.basename(inf))[0], i,
os.path.splitext(os.path.basename(inf))[1]))
#do not resample first swath
if i == 0:
if os.path.isfile(rinfs[i]):
os.remove(rinfs[i])
os.symlink(inf, rinfs[i])
else:
infImg = isceobj.createImage()
infImg.load(inf + '.xml')
rangeOffsets2Frac = rangeOffsets2[i] - int(rangeOffsets2[i])
azimuthOffsets2Frac = azimuthOffsets2[i] - int(azimuthOffsets2[i])
if resamplingMethod == 0:
rect_with_looks(inf, rinfs[i], infImg.width, infImg.length,
rectWidth[i], rectLength[i], rangeScale[i],
0.0, 0.0, azimuthScale[i],
rangeOffsets2Frac * rangeScale[i],
azimuthOffsets2Frac * azimuthScale[i], 1, 1, 1,
1, 'COMPLEX', 'Bilinear')
elif resamplingMethod == 1:
#decompose amplitude and phase
phaseFile = 'phase'
amplitudeFile = 'amplitude'
data = np.fromfile(inf, dtype=np.complex64).reshape(
infImg.length, infImg.width)
phase = np.exp(np.complex64(1j) * np.angle(data))
phase[np.nonzero(data == 0)] = 0
phase.astype(np.complex64).tofile(phaseFile)
amplitude = np.absolute(data)
amplitude.astype(np.float32).tofile(amplitudeFile)
#resampling
phaseRectFile = 'phaseRect'
amplitudeRectFile = 'amplitudeRect'
rect_with_looks(phaseFile, phaseRectFile, infImg.width,
infImg.length, rectWidth[i], rectLength[i],
rangeScale[i], 0.0, 0.0, azimuthScale[i],
rangeOffsets2Frac * rangeScale[i],
azimuthOffsets2Frac * azimuthScale[i], 1, 1, 1,
1, 'COMPLEX', 'Sinc')
rect_with_looks(amplitudeFile, amplitudeRectFile, infImg.width,
infImg.length, rectWidth[i], rectLength[i],
rangeScale[i], 0.0, 0.0, azimuthScale[i],
rangeOffsets2Frac * rangeScale[i],
azimuthOffsets2Frac * azimuthScale[i], 1, 1, 1,
1, 'REAL', 'Bilinear')
#recombine amplitude and phase
phase = np.fromfile(phaseRectFile, dtype=np.complex64).reshape(
rectLength[i], rectWidth[i])
amplitude = np.fromfile(amplitudeRectFile,
dtype=np.float32).reshape(
rectLength[i], rectWidth[i])
(phase * amplitude).astype(np.complex64).tofile(rinfs[i])
#tidy up
os.remove(phaseFile)
os.remove(amplitudeFile)
os.remove(phaseRectFile)
os.remove(amplitudeRectFile)
#determine output width and length
#actually no need to calculate in range direction
xs = []
xe = []
ys = []
ye = []
for i in range(numberOfSwaths):
if i == 0:
xs.append(0)
xe.append(rectWidth[i] - 1)
ys.append(0)
ye.append(rectLength[i] - 1)
else:
xs.append(0 - int(rangeOffsets2[i]))
xe.append(rectWidth[i] - 1 - int(rangeOffsets2[i]))
ys.append(0 - int(azimuthOffsets2[i]))
ye.append(rectLength[i] - 1 - int(azimuthOffsets2[i]))
(xmin, xminIndex) = min((v, i) for i, v in enumerate(xs))
(xmax, xmaxIndex) = max((v, i) for i, v in enumerate(xe))
(ymin, yminIndex) = min((v, i) for i, v in enumerate(ys))
(ymax, ymaxIndex) = max((v, i) for i, v in enumerate(ye))
outWidth = xmax - xmin + 1
outLength = ymax - ymin + 1
#prepare offset for mosaicing
rangeOffsets3 = []
azimuthOffsets3 = []
for i in range(numberOfSwaths):
azimuthOffsets3.append(
int(azimuthOffsets2[i]) - int(azimuthOffsets2[yminIndex]))
if i != 0:
rangeOffsets3.append(
int(rangeOffsets2[i]) - int(rangeOffsets2[i - 1]))
else:
rangeOffsets3.append(0)
delta = int(30 / numberOfRangeLooks)
#compute compensation phase for each swath
diffMean2 = [0.0 for i in range(numberOfSwaths)]
phaseDiffEst = [None for i in range(numberOfSwaths)]
#True if:
# (1) used diff phase from input
# (2) used estimated diff phase after snapping to a fixed diff phase provided
#False if:
# (1) used purely estimated diff phase
phaseDiffSource = ['estimated' for i in range(numberOfSwaths)]
# 1. 'estimated': estimated from subswath overlap
# 2. 'estimated+snap': estimated from subswath overlap and snap to a fixed value
# 3. 'input': pre-computed
# confidence level: 3 > 2 > 1
if phaseCompensation:
#compute swath phase offset
diffMean = [0.0]
for i in range(1, numberOfSwaths):
#no need to estimate diff phase if provided from input
#####################################################################
if phaseDiff != None:
if phaseDiff[i] != None:
diffMean.append(phaseDiff[i])
phaseDiffSource[i] = 'input'
print('using pre-computed phase offset given from input')
print('phase offset: subswath{} - subswath{}: {}'.format(
frame.swaths[i - 1].swathNumber,
frame.swaths[i].swathNumber, phaseDiff[i]))
continue
#####################################################################
#all indexes start with zero, all the computed start/end sample/line indexes are included.
#no need to add edge here, as we are going to find first/last nonzero sample/lines later
#edge = delta
edge = 0
#image i-1
startSample1 = edge + 0 - int(rangeOffsets2[i]) + int(
rangeOffsets2[i - 1])
endSample1 = -edge + rectWidth[i - 1] - 1
startLine1 = edge + max(
0 - int(azimuthOffsets2[i]) + int(azimuthOffsets2[i - 1]), 0)
endLine1 = -edge + min(
rectLength[i] - 1 - int(azimuthOffsets2[i]) +
int(azimuthOffsets2[i - 1]), rectLength[i - 1] - 1)
data1 = readImage(rinfs[i - 1], rectWidth[i - 1],
rectLength[i - 1], startSample1, endSample1,
startLine1, endLine1)
#image i
startSample2 = edge + 0
endSample2 = -edge + rectWidth[i - 1] - 1 - int(
rangeOffsets2[i - 1]) + int(rangeOffsets2[i])
startLine2 = edge + max(
0 - int(azimuthOffsets2[i - 1]) + int(azimuthOffsets2[i]), 0)
endLine2 = -edge + min(
rectLength[i - 1] - 1 - int(azimuthOffsets2[i - 1]) +
int(azimuthOffsets2[i]), rectLength[i] - 1)
data2 = readImage(rinfs[i], rectWidth[i], rectLength[i],
startSample2, endSample2, startLine2, endLine2)
#remove edge due to incomplete covolution in resampling
edge = 9
(startLine0, endLine0, startSample0, endSample0) = findNonzero(
np.logical_and((data1 != 0), (data2 != 0)))
data1 = data1[startLine0 + edge:endLine0 + 1 - edge,
startSample0 + edge:endSample0 + 1 - edge]
data2 = data2[startLine0 + edge:endLine0 + 1 - edge,
startSample0 + edge:endSample0 + 1 - edge]
#take looks
data1 = multilook(data1, pcAzimuthLooks, pcRangeLooks)
data2 = multilook(data2, pcAzimuthLooks, pcRangeLooks)
#filter
if filt:
data1 /= (np.absolute(data1) + (data1 == 0))
data2 /= (np.absolute(data2) + (data2 == 0))
data1 = filterInterferogram(data1, 3.0, 64, 1)
data2 = filterInterferogram(data2, 3.0, 64, 1)
#get difference
dataDiff = data1 * np.conj(data2)
cor = cal_coherence_1(dataDiff, win=5)
index = np.nonzero(np.logical_and(cor > 0.85, dataDiff != 0))
DEBUG = False
if DEBUG:
from isceobj.Alos2Proc.Alos2ProcPublic import create_xml
(length7, width7) = dataDiff.shape
filename = 'diff_ori_s{}-s{}.int'.format(
frame.swaths[i - 1].swathNumber,
frame.swaths[i].swathNumber)
dataDiff.astype(np.complex64).tofile(filename)
create_xml(filename, width7, length7, 'int')
filename = 'cor_ori_s{}-s{}.cor'.format(
frame.swaths[i - 1].swathNumber,
frame.swaths[i].swathNumber)
cor.astype(np.float32).tofile(filename)
create_xml(filename, width7, length7, 'float')
print('\ncompute phase difference between subswaths {} and {}'.
format(frame.swaths[i - 1].swathNumber,
frame.swaths[i].swathNumber))
print('number of pixels with coherence > 0.85: {}'.format(
index[0].size))
#if already filtered the subswath overlap interferograms (MAI), do not filtered differential interferograms
if (filt == False) and (index[0].size < 4000):
#coherence too low, filter subswath overlap differential interferogram
diffMean0 = 0.0
breakFlag = False
for (filterStrength, filterWinSize) in zip([3.0, 9.0],
[64, 128]):
dataDiff = data1 * np.conj(data2)
dataDiff /= (np.absolute(dataDiff) + (dataDiff == 0))
dataDiff = filterInterferogram(dataDiff, filterStrength,
filterWinSize, 1)
cor = cal_coherence_1(dataDiff, win=7)
DEBUG = False
if DEBUG:
from isceobj.Alos2Proc.Alos2ProcPublic import create_xml
(length7, width7) = dataDiff.shape
filename = 'diff_filt_s{}-s{}_strength_{}_winsize_{}.int'.format(
frame.swaths[i - 1].swathNumber,
frame.swaths[i].swathNumber, filterStrength,
filterWinSize)
dataDiff.astype(np.complex64).tofile(filename)
create_xml(filename, width7, length7, 'int')
filename = 'cor_filt_s{}-s{}_strength_{}_winsize_{}.cor'.format(
frame.swaths[i - 1].swathNumber,
frame.swaths[i].swathNumber, filterStrength,
filterWinSize)
cor.astype(np.float32).tofile(filename)
create_xml(filename, width7, length7, 'float')
for corth in [0.99999, 0.9999]:
index = np.nonzero(
np.logical_and(cor > corth, dataDiff != 0))
if index[0].size > 30000:
breakFlag = True
break
if breakFlag:
break
if index[0].size < 100:
diffMean0 = 0.0
print(
'\n\nWARNING: too few high coherence pixels for swath phase difference estimation'
)
print(' number of high coherence pixels: {}\n\n'.
format(index[0].size))
else:
print(
'filtered coherence threshold used: {}, number of pixels used: {}'
.format(corth, index[0].size))
angle = np.mean(np.angle(dataDiff[index]),
dtype=np.float64)
diffMean0 += angle
data2 *= np.exp(np.complex64(1j) * angle)
print(
'phase offset: %15.12f rad with filter strength: %f, window size: %3d'
% (diffMean0, filterStrength, filterWinSize))
else:
diffMean0 = 0.0
for k in range(30):
dataDiff = data1 * np.conj(data2)
cor = cal_coherence_1(dataDiff, win=5)
if filt:
index = np.nonzero(
np.logical_and(cor > 0.95, dataDiff != 0))
else:
index = np.nonzero(
np.logical_and(cor > 0.85, dataDiff != 0))
if index[0].size < 100:
diffMean0 = 0.0
print(
'\n\nWARNING: too few high coherence pixels for swath phase difference estimation'
)
print(
' number of high coherence pixels: {}\n\n'.
format(index[0].size))
break
angle = np.mean(np.angle(dataDiff[index]),
dtype=np.float64)
diffMean0 += angle
data2 *= np.exp(np.complex64(1j) * angle)
print('phase offset: %15.12f rad after loop: %3d' %
(diffMean0, k))
DEBUG = False
if DEBUG and (k == 0):
from isceobj.Alos2Proc.Alos2ProcPublic import create_xml
(length7, width7) = dataDiff.shape
filename = 'diff_ori_s{}-s{}_loop_{}.int'.format(
frame.swaths[i - 1].swathNumber,
frame.swaths[i].swathNumber, k)
dataDiff.astype(np.complex64).tofile(filename)
create_xml(filename, width7, length7, 'int')
filename = 'cor_ori_s{}-s{}_loop_{}.cor'.format(
frame.swaths[i - 1].swathNumber,
frame.swaths[i].swathNumber, k)
cor.astype(np.float32).tofile(filename)
create_xml(filename, width7, length7, 'float')
#save purely estimated diff phase
phaseDiffEst[i] = diffMean0
#if fixed diff phase provided and the estimated diff phase is close enough to a fixed value, snap to it
############################################################################################################
if phaseDiffFixed != None:
phaseDiffTmp = np.absolute(
np.absolute(np.array(phaseDiffFixed)) -
np.absolute(diffMean0))
phaseDiffTmpMinIndex = np.argmin(phaseDiffTmp)
if phaseDiffTmp[phaseDiffTmpMinIndex] < snapThreshold:
diffMean0 = np.sign(diffMean0) * np.absolute(
phaseDiffFixed[phaseDiffTmpMinIndex])
phaseDiffSource[i] = 'estimated+snap'
############################################################################################################
diffMean.append(diffMean0)
print('phase offset: subswath{} - subswath{}: {}'.format(
frame.swaths[i - 1].swathNumber, frame.swaths[i].swathNumber,
diffMean0))
for i in range(1, numberOfSwaths):
for j in range(1, i + 1):
diffMean2[i] += diffMean[j]
#mosaic swaths
diffflag = 1
oflag = [0 for i in range(numberOfSwaths)]
mosaicsubswath(outputfile, outWidth, outLength, delta, diffflag,
numberOfSwaths, rinfs, rectWidth, rangeOffsets3,
azimuthOffsets3, diffMean2, oflag)
#remove tmp files
for x in rinfs:
os.remove(x)
#update frame parameters
if updateFrame:
#mosaic size
frame.numberOfSamples = outWidth
frame.numberOfLines = outLength
#NOTE THAT WE ARE STILL USING SINGLE LOOK PARAMETERS HERE
#range parameters
frame.startingRange = frame.swaths[0].startingRange
frame.rangeSamplingRate = frame.swaths[0].rangeSamplingRate
frame.rangePixelSize = frame.swaths[0].rangePixelSize
#azimuth parameters
azimuthTimeOffset = -max([
int(x) for x in azimuthOffsets2
]) * numberOfAzimuthLooks * frame.swaths[0].azimuthLineInterval
frame.sensingStart = frame.swaths[0].sensingStart + datetime.timedelta(
seconds=azimuthTimeOffset)
frame.prf = frame.swaths[0].prf
frame.azimuthPixelSize = frame.swaths[0].azimuthPixelSize
frame.azimuthLineInterval = frame.swaths[0].azimuthLineInterval
if phaseCompensation:
# estimated phase diff, used phase diff, used phase diff source
return (phaseDiffEst, diffMean, phaseDiffSource)
def runPrepESD(self):
'''
Create additional layers for performing ESD.
'''
if not self.doESD:
return
swathList = self._insar.getValidSwathList(self.swaths)
for swath in swathList:
if self._insar.numberOfCommonBursts[swath-1] < 2:
print('Skipping prepesd for swath IW{0}'.format(swath))
continue
minBurst, maxBurst = self._insar.commonMasterBurstLimits(swath-1)
slaveBurstStart, slaveBurstEnd = self._insar.commonSlaveBurstLimits(swath-1)
####Load full products
master = self._insar.loadProduct( os.path.join(self._insar.masterSlcProduct, 'IW{0}.xml'.format(swath)))
slave = self._insar.loadProduct( os.path.join(self._insar.slaveSlcProduct, 'IW{0}.xml'.format(swath)))
####Estimate relative shifts
relShifts = getRelativeShifts(master, slave, minBurst, maxBurst, slaveBurstStart)
maxBurst = maxBurst - 1 ###For overlaps
####Load metadata for burst IFGs
ifgTop = self._insar.loadProduct( os.path.join(self._insar.coarseIfgOverlapProduct, 'top_IW{0}.xml'.format(swath)))
ifgBottom = self._insar.loadProduct( os.path.join(self._insar.coarseIfgOverlapProduct, 'bottom_IW{0}.xml'.format(swath)))
print('Relative shifts for swath {0}:'.format(swath))
pprint.pprint(relShifts)
####Create ESD output directory
esddir = self._insar.esdDirname
os.makedirs(esddir, exist_ok=True)
####Overlap offsets directory
offdir = os.path.join( self._insar.coarseOffsetsDirname, self._insar.overlapsSubDirname, 'IW{0}'.format(swath))
ifglist = []
factorlist = []
offsetlist = []
cohlist = []
for ii in range(minBurst, maxBurst):
ind = ii - minBurst ###Index into overlaps
sind = slaveBurstStart + ind ###Index into slave
topShift = relShifts[sind]
botShift = relShifts[sind+1]
topBurstIfg = ifgTop.bursts[ind]
botBurstIfg = ifgBottom.bursts[ind]
####Double difference interferograms
topInt = np.memmap( topBurstIfg.image.filename,
dtype=np.complex64, mode='r',
shape = (topBurstIfg.numberOfLines, topBurstIfg.numberOfSamples))
botInt = np.memmap( botBurstIfg.image.filename,
dtype=np.complex64, mode='r',
shape = (botBurstIfg.numberOfLines, botBurstIfg.numberOfSamples))
intName = os.path.join(esddir, 'overlap_IW%d_%02d.int'%(swath,ii+1))
freqName = os.path.join(esddir, 'freq_IW%d_%02d.bin'%(swath,ii+1))
with open(intName, 'wb') as fid:
fid.write( topInt * np.conj(botInt))
img = isceobj.createIntImage()
img.setFilename(intName)
img.setLength(topBurstIfg.numberOfLines)
img.setWidth(topBurstIfg.numberOfSamples)
img.setAccessMode('READ')
img.renderHdr()
multIntName= multilook(intName, alks = self.esdAzimuthLooks, rlks=self.esdRangeLooks)
ifglist.append(multIntName)
####Estimate coherence of double different interferograms
multCor = createCoherence(multIntName)
cohlist.append(multCor)
####Estimate the frequency difference
azTop = os.path.join(offdir, 'azimuth_top_%02d_%02d.off'%(ii+1,ii+2))
rgTop = os.path.join(offdir, 'range_top_%02d_%02d.off'%(ii+1,ii+2))
azBot = os.path.join(offdir, 'azimuth_bot_%02d_%02d.off'%(ii+1,ii+2))
rgBot = os.path.join(offdir, 'range_bot_%02d_%02d.off'%(ii+1,ii+2))
mFullTop = master.bursts[ii]
mFullBot = master.bursts[ii+1]
sFullTop = slave.bursts[sind]
sFullBot = slave.bursts[sind+1]
freqdiff = overlapSpectralSeparation(topBurstIfg, botBurstIfg, mFullTop, mFullBot, sFullTop, sFullBot, azTop, rgTop, azBot, rgBot)
with open(freqName, 'wb') as fid:
(freqdiff * 2 * np.pi * mFullTop.azimuthTimeInterval).astype(np.float32).tofile(fid)
img = isceobj.createImage()
img.setFilename(freqName)
img.setWidth(topBurstIfg.numberOfSamples)
img.setLength(topBurstIfg.numberOfLines)
img.setAccessMode('READ')
img.bands = 1
img.dataType = 'FLOAT'
img.renderHdr()
multConstName = multilook(freqName, alks = self.esdAzimuthLooks, rlks = self.esdRangeLooks)
factorlist.append(multConstName)
def run(imageAmp, imageSim, numBand, infos, nstages, scale, stdWriter, catalog=None, sceneid='NO_ID'):
logger.info("Running Rgoffset: %s" % sceneid)
coarseAcross = 0
coarseDown = 0
firstAc = infos['firstSampleAcross']
firstDown = infos['firstSampleDown']
numLocationAcross = infos['numberLocationAcross']
numLocationDown = infos['numberLocationDown']
slaveWidth = imageAmp.getWidth()
slaveLength = imageAmp.getLength()
objAmp = isceobj.createSlcImage()
objAmp.dataType = 'CFLOAT'
objAmp.bands = 1
objAmp.setFilename(imageAmp.getFilename())
objAmp.setAccessMode('read')
objAmp.setWidth(slaveWidth)
objAmp.createImage()
masterWidth = imageSim.getWidth()
objSim = isceobj.createImage()
objSim.setFilename(imageSim.getFilename())
objSim.dataType = 'FLOAT'
objSim.setWidth(masterWidth)
objSim.setAccessMode('read')
objSim.createImage()
masterLength = imageSim.getLength()
finalIteration = False
for iterNum in xrange(nstages-1,-1,-1):
####Rewind the images
try:
objAmp.rewind()
objSim.rewind()
except:
print('Issues when rewinding images.') #KK sys.exit?
######
logger.debug('Starting Iteration Stage : %d'%(iterNum))
logger.debug("Gross Across: %s" % (coarseAcross))
logger.debug("Gross Down: %s" % (coarseDown))
####Clear objs
objAmpcor = None
objOff = None
offField = None
objAmpcor = Ampcor()
objAmpcor.setImageDataType1('real')
objAmpcor.setImageDataType2('complex')
####Dummy values as there is no scale difference at this step
objAmpcor.setFirstPRF(1.0)
objAmpcor.setSecondPRF(1.0)
objAmpcor.setFirstRangeSpacing(1.0)
objAmpcor.setSecondRangeSpacing(1.0)
#####Scale all the reference and search windows
scaleFactor = scale**iterNum
objAmpcor.windowSizeWidth *= scaleFactor
objAmpcor.windowSizeHeight *= scaleFactor
objAmpcor.searchWindowSizeWidth *= scaleFactor
objAmpcor.searchWindowSizeHeight *= scaleFactor
xMargin = 2*objAmpcor.searchWindowSizeWidth + objAmpcor.windowSizeWidth
yMargin = 2*objAmpcor.searchWindowSizeHeight + objAmpcor.windowSizeHeight
#####Set image limits for search
offAc = max(firstAc,-coarseAcross)+xMargin
offDn = max(firstDn,-coarseDown)+yMargin
offAcmax = int(coarseAcross)
logger.debug("Gross Max Across: %s" % (offAcmax))
lastAc = int(min(masterWidth, slaveWidth-offAcmax) - xMargin)
offDnmax = int(coarseDown)
logger.debug("Gross Max Down: %s" % (offDnmax))
lastDn = int(min(masterLength, slaveLength-offDnmax) - yMargin)
logger.debug("Last Down: %s" %(lastDn))
objAmpcor.setFirstSampleAcross(offAc)
objAmpcor.setLastSampleAcross(lastAc)
objAmpcor.setFirstSampleDown(offDn)
objAmpcor.setLastSampleDown(lastDn)
objAmpcor.setAcrossGrossOffset(coarseAcross)
objAmpcor.setDownGrossOffset(coarseDown)
if (offAc > lastAc) or (offDn > lastDn):
print('Search window scale is too large.')
print('Skipping Scale: %d'%(iterNum+1))
continue
if ((lastAc - offAc) <= (2*xMargin)) or ((lastDn - offDn) <= (2*yMargin)):
print('Image not large enough accounting for margins.')
print('Skipping Scale: %d'%(iterNum+1))
continue
logger.debug('Looks = %d'%scaleFactor)
logger.debug('Correlation window sizes: %d %d'%(objAmpcor.windowSizeWidth, objAmpcor.windowSizeHeight))
logger.debug('Search window sizes: %d %d'%(objAmpcor.searchWindowSizeWidth, objAmpcor.searchWindowSizeHeight))
logger.debug(' Across pos: %d %d out of (%d,%d)'%(objAmpcor.firstSampleAcross, objAmpcor.lastSampleAcross, masterWidth, slaveWidth))
logger.debug(' Down pos: %d %d out of (%d,%d)'%(objAmpcor.firstSampleDown, objAmpcor.lastSampleDown, masterLength, slaveLength))
if (iterNum == 0) or finalIteration:
if catalog is not None:
# Record the inputs
isceobj.Catalog.recordInputs(catalog, objAmpcor,
"runRgoffset.%s" % sceneid,
logger,
"runRgoffset.%s" % sceneid)
objAmpcor.setNumberLocationAcross(numLocationAcross)
objAmpcor.setNumberLocationDown(numLocationDown)
else:
objAmpcor.setNumberLocationAcross(20)
objAmpcor.setNumberLocationDown(20)
objAmpcor.setAcrossLooks(scaleFactor)
objAmpcor.setDownLooks(scaleFactor)
objAmpcor.setZoomWindowSize(scale*objAmpcor.zoomWindowSize)
objAmpcor.setOversamplingFactor(2)
objAmpcor.ampcor(objSim,objAmp)
offField = objAmpcor.getOffsetField()
if (iterNum == 0) or finalIteration:
if catalog is not None:
# Record the outputs
isceobj.Catalog.recordOutputs(catalog, objAmpcor,
"runRgoffset.%s" % sceneid,
logger,
"runRgoffset.%s" % sceneid)
else:
objOff = isceobj.createOffoutliers()
objOff.wireInputPort(name='offsets', object=offField)
objOff.setSNRThreshold(2.0)
objOff.setDistance(10)
objOff.setStdWriter = stdWriter.set_file_tags("nstage_offoutliers"+str(iterNum),
"log",
"err",
"out")
objOff.offoutliers()
coarseAcross = int(objOff.averageOffsetAcross)
coarseDown = int(objOff.averageOffsetDown)
objSim.finalizeImage()
objAmp.finalizeImage()
objOff = None
objAmpcor = None
return offField
def runUnwrapSnaphuSd(self):
'''unwrap filtered interferogram
'''
catalog = isceobj.Catalog.createCatalog(self._insar.procDoc.name)
self.updateParamemetersFromUser()
masterTrack = self._insar.loadTrack(master=True)
#slaveTrack = self._insar.loadTrack(master=False)
sdDir = 'sd'
if not os.path.exists(sdDir):
os.makedirs(sdDir)
os.chdir(sdDir)
############################################################
# STEP 1. unwrap interferogram
############################################################
nsd = len(self._insar.filteredInterferogramSd)
img = isceobj.createImage()
img.load(self._insar.filteredInterferogramSd[0] + '.xml')
width = img.width
length = img.length
if shutil.which('snaphu') != None:
print(
'\noriginal snaphu program found, use it for unwrapping interferograms'
)
useOriginalSnaphu = True
#create an amplitude for use
# amplitude = os.path.join('../insar', self._insar.amplitude)
# amplitudeMultilook = 'tmp.amp'
# img = isceobj.createImage()
# img.load(amplitude+'.xml')
# look(amplitude, amplitudeMultilook, img.width, self._insar.numberRangeLooksSd, self._insar.numberAzimuthLooksSd, 4, 1, 1)
else:
useOriginalSnaphu = False
for sdCoherence, sdInterferogramFilt, sdInterferogramUnwrap in zip(
self._insar.multilookCoherenceSd,
self._insar.filteredInterferogramSd,
self._insar.unwrappedInterferogramSd):
if useOriginalSnaphu:
amplitudeMultilook = 'tmp.amp'
cmd = "imageMath.py -e='sqrt(abs(a));sqrt(abs(a))' --a={} -o {} -t float -s BSQ".format(
sdInterferogramFilt, amplitudeMultilook)
runCmd(cmd)
snaphuUnwrapOriginal(sdInterferogramFilt,
sdCoherence,
amplitudeMultilook,
sdInterferogramUnwrap,
costMode='s',
initMethod='mcf')
os.remove(amplitudeMultilook)
os.remove(amplitudeMultilook + '.vrt')
os.remove(amplitudeMultilook + '.xml')
else:
tmid = masterTrack.sensingStart + datetime.timedelta(
seconds=(self._insar.numberAzimuthLooks1 - 1.0) / 2.0 *
masterTrack.azimuthLineInterval + masterTrack.numberOfLines /
2.0 * self._insar.numberAzimuthLooks1 *
masterTrack.azimuthLineInterval)
snaphuUnwrap(masterTrack,
tmid,
sdInterferogramFilt,
sdCoherence,
sdInterferogramUnwrap,
self._insar.numberRangeLooks1 *
self._insar.numberRangeLooksSd,
self._insar.numberAzimuthLooks1 *
self._insar.numberAzimuthLooksSd,
costMode='SMOOTH',
initMethod='MCF',
defomax=2,
initOnly=True)
#if useOriginalSnaphu:
# os.remove(amplitudeMultilook)
############################################################
# STEP 2. mask using connected components
############################################################
for sdInterferogramUnwrap, sdInterferogramUnwrapMasked in zip(
self._insar.unwrappedInterferogramSd,
self._insar.unwrappedMaskedInterferogramSd):
cmd = "imageMath.py -e='a_0*(b>0);a_1*(b>0)' --a={} --b={} -s BIL -t float -o={}".format(
sdInterferogramUnwrap, sdInterferogramUnwrap + '.conncomp',
sdInterferogramUnwrapMasked)
runCmd(cmd)
############################################################
# STEP 3. mask using water body
############################################################
if self.waterBodyMaskStartingStepSd == 'unwrap':
wbd = np.fromfile(self._insar.multilookWbdOutSd,
dtype=np.int8).reshape(length, width)
for sdInterferogramUnwrap, sdInterferogramUnwrapMasked in zip(
self._insar.unwrappedInterferogramSd,
self._insar.unwrappedMaskedInterferogramSd):
unw = np.memmap(sdInterferogramUnwrap,
dtype='float32',
mode='r+',
shape=(length * 2, width))
(unw[0:length * 2:2, :])[np.nonzero(wbd == -1)] = 0
(unw[1:length * 2:2, :])[np.nonzero(wbd == -1)] = 0
unw = np.memmap(sdInterferogramUnwrapMasked,
dtype='float32',
mode='r+',
shape=(length * 2, width))
(unw[0:length * 2:2, :])[np.nonzero(wbd == -1)] = 0
(unw[1:length * 2:2, :])[np.nonzero(wbd == -1)] = 0
############################################################
# STEP 4. convert to azimuth deformation
############################################################
#burst cycle in s
burstCycleLength = masterTrack.frames[0].swaths[
0].burstCycleLength / masterTrack.frames[0].swaths[0].prf
#compute azimuth fmrate
#stack all azimuth fmrates
index = np.array([], dtype=np.float64)
ka = np.array([], dtype=np.float64)
for frame in masterTrack.frames:
for swath in frame.swaths:
startingRangeMultilook = masterTrack.frames[0].swaths[0].startingRange + \
(self._insar.numberRangeLooks1*self._insar.numberRangeLooksSd-1.0)/2.0*masterTrack.frames[0].swaths[0].rangePixelSize
rangePixelSizeMultilook = self._insar.numberRangeLooks1 * self._insar.numberRangeLooksSd * masterTrack.frames[
0].swaths[0].rangePixelSize
index0 = (swath.startingRange +
np.arange(swath.numberOfSamples) * swath.rangePixelSize -
startingRangeMultilook) / rangePixelSizeMultilook
ka0 = np.polyval(swath.azimuthFmrateVsPixel[::-1],
np.arange(swath.numberOfSamples))
index = np.concatenate((index, index0))
ka = np.concatenate((ka, ka0))
p = np.polyfit(index, ka, 3)
#new ka
ka = np.polyval(p, np.arange(width))
#compute radar beam footprint velocity at middle track
tmid = masterTrack.sensingStart + datetime.timedelta(
seconds=(self._insar.numberAzimuthLooks1 - 1.0) / 2.0 *
masterTrack.azimuthLineInterval + masterTrack.numberOfLines / 2.0 *
self._insar.numberAzimuthLooks1 * masterTrack.azimuthLineInterval)
svmid = masterTrack.orbit.interpolateOrbit(tmid, method='hermite')
#earth radius in meters
r = 6371 * 1000.0
#radar footprint velocity
veln = np.linalg.norm(svmid.getVelocity()) * r / np.linalg.norm(
svmid.getPosition())
print('radar beam footprint velocity at middle track: %8.2f m/s' % veln)
#phase to defo factor
factor = -1.0 * veln / (2.0 * np.pi * ka * burstCycleLength)
#process unwrapped without mask
sdunw_out = np.zeros((length * 2, width))
flag = np.zeros((length, width))
wgt = np.zeros((length, width))
for i in range(nsd):
sdunw = np.fromfile(self._insar.unwrappedInterferogramSd[i],
dtype=np.float32).reshape(length * 2, width)
sdunw[1:length * 2:2, :] *= factor[None, :] / (i + 1.0)
sdunw.astype(np.float32).tofile(self._insar.azimuthDeformationSd[i])
create_xml(self._insar.azimuthDeformationSd[i], width, length, 'rmg')
flag += (sdunw[1:length * 2:2, :] != 0)
#since the interferogram is filtered, we only use this light weight
wgt0 = (i + 1)**2
wgt += wgt0 * (sdunw[1:length * 2:2, :] != 0)
sdunw_out[0:length * 2:2, :] += (sdunw[0:length * 2:2, :])**2
sdunw_out[1:length * 2:2, :] += wgt0 * sdunw[1:length * 2:2, :]
#output weighting average
index = np.nonzero(flag != 0)
(sdunw_out[0:length * 2:2, :])[index] = np.sqrt(
(sdunw_out[0:length * 2:2, :])[index] / flag[index])
(sdunw_out[1:length * 2:2, :]
)[index] = (sdunw_out[1:length * 2:2, :])[index] / wgt[index]
if not self.unionSd:
(sdunw_out[0:length * 2:2, :])[np.nonzero(flag < nsd)] = 0
(sdunw_out[1:length * 2:2, :])[np.nonzero(flag < nsd)] = 0
sdunw_out.astype(np.float32).tofile(self._insar.azimuthDeformationSd[-1])
create_xml(self._insar.azimuthDeformationSd[-1], width, length, 'rmg')
#process unwrapped with mask
sdunw_out = np.zeros((length * 2, width))
flag = np.zeros((length, width))
wgt = np.zeros((length, width))
for i in range(nsd):
sdunw = np.fromfile(self._insar.unwrappedMaskedInterferogramSd[i],
dtype=np.float32).reshape(length * 2, width)
sdunw[1:length * 2:2, :] *= factor[None, :] / (i + 1.0)
sdunw.astype(np.float32).tofile(
self._insar.maskedAzimuthDeformationSd[i])
create_xml(self._insar.maskedAzimuthDeformationSd[i], width, length,
'rmg')
flag += (sdunw[1:length * 2:2, :] != 0)
#since the interferogram is filtered, we only use this light weight
wgt0 = (i + 1)**2
wgt += wgt0 * (sdunw[1:length * 2:2, :] != 0)
sdunw_out[0:length * 2:2, :] += (sdunw[0:length * 2:2, :])**2
sdunw_out[1:length * 2:2, :] += wgt0 * sdunw[1:length * 2:2, :]
#output weighting average
index = np.nonzero(flag != 0)
(sdunw_out[0:length * 2:2, :])[index] = np.sqrt(
(sdunw_out[0:length * 2:2, :])[index] / flag[index])
(sdunw_out[1:length * 2:2, :]
)[index] = (sdunw_out[1:length * 2:2, :])[index] / wgt[index]
if not self.unionSd:
(sdunw_out[0:length * 2:2, :])[np.nonzero(flag < nsd)] = 0
(sdunw_out[1:length * 2:2, :])[np.nonzero(flag < nsd)] = 0
sdunw_out.astype(np.float32).tofile(
self._insar.maskedAzimuthDeformationSd[-1])
create_xml(self._insar.maskedAzimuthDeformationSd[-1], width, length,
'rmg')
os.chdir('../')
catalog.printToLog(logger, "runUnwrapSnaphuSd")
self._insar.procDoc.addAllFromCatalog(catalog)
def mergeBurstsVirtual(frame,
referenceFrame,
fileList,
outfile,
validOnly=True):
'''
Merging using VRTs.
'''
from VRTManager import Swath, VRTConstructor
swaths = [Swath(x) for x in frame]
refSwaths = [Swath(x) for x in referenceFrame]
###Identify the 4 corners and dimensions
#topSwath = min(swaths, key = lambda x: x.sensingStart)
#botSwath = max(swaths, key = lambda x: x.sensingStop)
#leftSwath = min(swaths, key = lambda x: x.nearRange)
#rightSwath = max(swaths, key = lambda x: x.farRange)
topSwath = min(refSwaths, key=lambda x: x.sensingStart)
botSwath = max(refSwaths, key=lambda x: x.sensingStop)
leftSwath = min(refSwaths, key=lambda x: x.nearRange)
rightSwath = max(refSwaths, key=lambda x: x.farRange)
totalWidth = int(
np.round((rightSwath.farRange - leftSwath.nearRange) / leftSwath.dr +
1))
totalLength = int(
np.round((botSwath.sensingStop -
topSwath.sensingStart).total_seconds() / topSwath.dt + 1))
###Determine number of bands and type
img = isceobj.createImage()
img.load(fileList[0][0] + '.xml')
bands = img.bands
dtype = img.dataType
img.filename = outfile
#####Start the builder
###Now start building the VRT and then render it
builder = VRTConstructor(totalLength, totalWidth)
builder.setReferenceTime(topSwath.sensingStart)
builder.setReferenceRange(leftSwath.nearRange)
builder.setTimeSpacing(topSwath.dt)
builder.setRangeSpacing(leftSwath.dr)
builder.setDataType(dtype.upper())
builder.initVRT()
####Render XML and default VRT. VRT will be overwritten.
img.width = totalWidth
img.length = totalLength
img.renderHdr()
for bnd in range(1, bands + 1):
builder.initBand(band=bnd)
for ind, swath in enumerate(swaths):
####Relative path
relfilelist = [
os.path.relpath(x, os.path.dirname(outfile))
for x in fileList[ind]
]
builder.addSwath(swath, relfilelist, band=bnd, validOnly=validOnly)
builder.finishBand()
builder.finishVRT()
with open(outfile + '.vrt', 'w') as fid:
fid.write(builder.vrt)
def runCoregCc(self):
'''coregister bursts by cross correlation
'''
catalog = isceobj.Catalog.createCatalog(self._insar.procDoc.name)
self.updateParamemetersFromUser()
referenceTrack = self._insar.loadTrack(reference=True)
secondaryTrack = self._insar.loadTrack(reference=False)
#demFile = os.path.abspath(self._insar.dem)
#wbdFile = os.path.abspath(self._insar.wbd)
###############################################################################
self._insar.rangeResidualOffsetCc = [
[] for i in range(len(referenceTrack.frames))
]
self._insar.azimuthResidualOffsetCc = [
[] for i in range(len(referenceTrack.frames))
]
for i, frameNumber in enumerate(self._insar.referenceFrames):
frameDir = 'f{}_{}'.format(i + 1, frameNumber)
os.chdir(frameDir)
for j, swathNumber in enumerate(
range(self._insar.startingSwath, self._insar.endingSwath + 1)):
swathDir = 's{}'.format(swathNumber)
os.chdir(swathDir)
print('processing frame {}, swath {}'.format(
frameNumber, swathNumber))
referenceSwath = referenceTrack.frames[i].swaths[j]
secondarySwath = secondaryTrack.frames[i].swaths[j]
##################################################
# estimate cross-correlation offsets
##################################################
#compute number of offsets to use
wbdImg = isceobj.createImage()
wbdImg.load(self._insar.wbdOut + '.xml')
width = wbdImg.width
length = wbdImg.length
#initial number of offsets to use
numberOfOffsets = 800
#compute land ratio to further determine the number of offsets to use
if self.useWbdForNumberOffsets:
wbd = np.memmap(self._insar.wbdOut,
dtype='byte',
mode='r',
shape=(length, width))
landRatio = np.sum(wbd == 0) / length / width
del wbd
if (landRatio <= 0.00125):
print(
'\n\nWARNING: land area too small for estimating offsets between reference and secondary magnitudes at frame {}, swath {}'
.format(frameNumber, swathNumber))
print('set offsets to zero\n\n')
self._insar.rangeResidualOffsetCc[i].append(0.0)
self._insar.azimuthResidualOffsetCc[i].append(0.0)
catalog.addItem(
'warning message',
'land area too small for estimating offsets between reference and secondary magnitudes at frame {}, swath {}'
.format(frameNumber, swathNumber), 'runCoregCc')
continue
#total number of offsets to use
numberOfOffsets /= landRatio
#allocate number of offsets in range/azimuth according to image width/length
#number of offsets to use in range/azimuth
numberOfOffsetsRange = int(
np.sqrt(numberOfOffsets * width / length))
numberOfOffsetsAzimuth = int(
length / width * np.sqrt(numberOfOffsets * width / length))
#this should be better?
numberOfOffsetsRange = int(np.sqrt(numberOfOffsets))
numberOfOffsetsAzimuth = int(np.sqrt(numberOfOffsets))
if numberOfOffsetsRange > int(width / 2):
numberOfOffsetsRange = int(width / 2)
if numberOfOffsetsAzimuth > int(length / 2):
numberOfOffsetsAzimuth = int(length / 2)
if numberOfOffsetsRange < 10:
numberOfOffsetsRange = 10
if numberOfOffsetsAzimuth < 10:
numberOfOffsetsAzimuth = 10
#user's settings
if self.numberRangeOffsets != None:
numberOfOffsetsRange = self.numberRangeOffsets[i][j]
if self.numberAzimuthOffsets != None:
numberOfOffsetsAzimuth = self.numberAzimuthOffsets[i][j]
catalog.addItem(
'number of range offsets at frame {}, swath {}'.format(
frameNumber, swathNumber),
'{}'.format(numberOfOffsetsRange), 'runCoregCc')
catalog.addItem(
'number of azimuth offsets at frame {}, swath {}'.format(
frameNumber, swathNumber),
'{}'.format(numberOfOffsetsAzimuth), 'runCoregCc')
#need to cp to current directory to make it (gdal) work
if not os.path.isfile(self._insar.referenceMagnitude):
os.symlink(
os.path.join(self._insar.referenceBurstPrefix,
self._insar.referenceMagnitude),
self._insar.referenceMagnitude)
#shutil.copy2() can overwrite
shutil.copy2(
os.path.join(self._insar.referenceBurstPrefix,
self._insar.referenceMagnitude + '.vrt'),
self._insar.referenceMagnitude + '.vrt')
shutil.copy2(
os.path.join(self._insar.referenceBurstPrefix,
self._insar.referenceMagnitude + '.xml'),
self._insar.referenceMagnitude + '.xml')
if not os.path.isfile(self._insar.secondaryMagnitude):
os.symlink(
os.path.join(
self._insar.secondaryBurstPrefix + '_1_coreg_geom',
self._insar.secondaryMagnitude),
self._insar.secondaryMagnitude)
#shutil.copy2() can overwrite
shutil.copy2(
os.path.join(
self._insar.secondaryBurstPrefix + '_1_coreg_geom',
self._insar.secondaryMagnitude + '.vrt'),
self._insar.secondaryMagnitude + '.vrt')
shutil.copy2(
os.path.join(
self._insar.secondaryBurstPrefix + '_1_coreg_geom',
self._insar.secondaryMagnitude + '.xml'),
self._insar.secondaryMagnitude + '.xml')
#matching
ampcor = Ampcor(name='insarapp_slcs_ampcor')
ampcor.configure()
mMag = isceobj.createImage()
mMag.load(self._insar.referenceMagnitude + '.xml')
mMag.setAccessMode('read')
mMag.createImage()
sMag = isceobj.createImage()
sMag.load(self._insar.secondaryMagnitude + '.xml')
sMag.setAccessMode('read')
sMag.createImage()
ampcor.setImageDataType1('real')
ampcor.setImageDataType2('real')
ampcor.setReferenceSlcImage(mMag)
ampcor.setSecondarySlcImage(sMag)
#MATCH REGION
rgoff = 0
azoff = 0
#it seems that we cannot use 0, haven't look into the problem
if rgoff == 0:
rgoff = 1
if azoff == 0:
azoff = 1
firstSample = 1
if rgoff < 0:
firstSample = int(35 - rgoff)
firstLine = 1
if azoff < 0:
firstLine = int(35 - azoff)
ampcor.setAcrossGrossOffset(rgoff)
ampcor.setDownGrossOffset(azoff)
ampcor.setFirstSampleAcross(firstSample)
ampcor.setLastSampleAcross(mMag.width)
ampcor.setNumberLocationAcross(numberOfOffsetsRange)
ampcor.setFirstSampleDown(firstLine)
ampcor.setLastSampleDown(mMag.length)
ampcor.setNumberLocationDown(numberOfOffsetsAzimuth)
#MATCH PARAMETERS
ampcor.setWindowSizeWidth(64)
ampcor.setWindowSizeHeight(64)
#note this is the half width/length of search area, so number of resulting correlation samples: 8*2+1
ampcor.setSearchWindowSizeWidth(8)
ampcor.setSearchWindowSizeHeight(8)
#REST OF THE STUFF
ampcor.setAcrossLooks(1)
ampcor.setDownLooks(1)
ampcor.setOversamplingFactor(64)
ampcor.setZoomWindowSize(16)
#1. The following not set
#Matching Scale for Sample/Line Directions (-) = 1. 1.
#should add the following in Ampcor.py?
#if not set, in this case, Ampcor.py'value is also 1. 1.
#ampcor.setScaleFactorX(1.)
#ampcor.setScaleFactorY(1.)
#MATCH THRESHOLDS AND DEBUG DATA
#2. The following not set
#in roi_pac the value is set to 0 1
#in isce the value is set to 0.001 1000.0
#SNR and Covariance Thresholds (-) = {s1} {s2}
#should add the following in Ampcor?
#THIS SHOULD BE THE ONLY THING THAT IS DIFFERENT FROM THAT OF ROI_PAC
#ampcor.setThresholdSNR(0)
#ampcor.setThresholdCov(1)
ampcor.setDebugFlag(False)
ampcor.setDisplayFlag(False)
#in summary, only two things not set which are indicated by 'The following not set' above.
#run ampcor
ampcor.ampcor()
offsets = ampcor.getOffsetField()
refinedOffsets = cullOffsetsRoipac(offsets, numThreshold=50)
#finalize image, and re-create it
#otherwise the file pointer is still at the end of the image
mMag.finalizeImage()
sMag.finalizeImage()
#clear up
os.remove(self._insar.referenceMagnitude)
os.remove(self._insar.referenceMagnitude + '.vrt')
os.remove(self._insar.referenceMagnitude + '.xml')
os.remove(self._insar.secondaryMagnitude)
os.remove(self._insar.secondaryMagnitude + '.vrt')
os.remove(self._insar.secondaryMagnitude + '.xml')
#compute average offsets to use in resampling
if refinedOffsets == None:
rangeOffset = 0
azimuthOffset = 0
self._insar.rangeResidualOffsetCc[i].append(rangeOffset)
self._insar.azimuthResidualOffsetCc[i].append(azimuthOffset)
print(
'\n\nWARNING: too few offsets left in matching reference and secondary magnitudes at frame {}, swath {}'
.format(frameNumber, swathNumber))
print('set offsets to zero\n\n')
catalog.addItem(
'warning message',
'too few offsets left in matching reference and secondary magnitudes at frame {}, swath {}'
.format(frameNumber, swathNumber), 'runCoregCc')
else:
rangeOffset, azimuthOffset = meanOffset(refinedOffsets)
#for range offset, need to compute from a polynomial
#see components/isceobj/Location/Offset.py and components/isceobj/Util/Library/python/Poly2D.py for definations
(azimuthPoly,
rangePoly) = refinedOffsets.getFitPolynomials(rangeOrder=2,
azimuthOrder=2)
#make a deep copy, otherwise it also changes original coefficient list of rangePoly, which affects following rangePoly(*, *) computation
polyCoeff = copy.deepcopy(rangePoly.getCoeffs())
rgIndex = (np.arange(width) - rangePoly.getMeanRange()
) / rangePoly.getNormRange()
azIndex = (np.arange(length) - rangePoly.getMeanAzimuth()
) / rangePoly.getNormAzimuth()
rangeOffset = polyCoeff[0][0] + polyCoeff[0][1]*rgIndex[None,:] + polyCoeff[0][2]*rgIndex[None,:]**2 + \
(polyCoeff[1][0] + polyCoeff[1][1]*rgIndex[None,:]) * azIndex[:, None] + \
polyCoeff[2][0] * azIndex[:, None]**2
polyCoeff.append([
rangePoly.getMeanRange(),
rangePoly.getNormRange(),
rangePoly.getMeanAzimuth(),
rangePoly.getNormAzimuth()
])
self._insar.rangeResidualOffsetCc[i].append(polyCoeff)
self._insar.azimuthResidualOffsetCc[i].append(azimuthOffset)
catalog.addItem(
'range residual offset at {} {} at frame {}, swath {}'.
format(0, 0, frameNumber, swathNumber),
'{}'.format(rangePoly(0, 0)), 'runCoregCc')
catalog.addItem(
'range residual offset at {} {} at frame {}, swath {}'.
format(0, width - 1, frameNumber, swathNumber),
'{}'.format(rangePoly(0, width - 1)), 'runCoregCc')
catalog.addItem(
'range residual offset at {} {} at frame {}, swath {}'.
format(length - 1, 0, frameNumber, swathNumber),
'{}'.format(rangePoly(length - 1, 0)), 'runCoregCc')
catalog.addItem(
'range residual offset at {} {} at frame {}, swath {}'.
format(length - 1, width - 1, frameNumber, swathNumber),
'{}'.format(rangePoly(length - 1,
width - 1)), 'runCoregCc')
catalog.addItem(
'azimuth residual offset at frame {}, swath {}'.format(
frameNumber, swathNumber), '{}'.format(azimuthOffset),
'runCoregCc')
DEBUG = False
if DEBUG:
print('+++++++++++++++++++++++++++++')
print(rangeOffset[0, 0], rangePoly(0, 0))
print(rangeOffset[0, width - 1], rangePoly(0, width - 1))
print(rangeOffset[length - 1, 0], rangePoly(length - 1, 0))
print(rangeOffset[length - 1, width - 1],
rangePoly(length - 1, width - 1))
print(
rangeOffset[int((length - 1) / 2),
int((width - 1) / 2)],
rangePoly(int((length - 1) / 2), int((width - 1) / 2)))
print('+++++++++++++++++++++++++++++')
##################################################
# resample bursts
##################################################
secondaryBurstResampledDir = self._insar.secondaryBurstPrefix + '_2_coreg_cc'
#interferogramDir = self._insar.referenceBurstPrefix + '-' + self._insar.secondaryBurstPrefix + '_coreg_geom'
interferogramDir = 'burst_interf_2_coreg_cc'
interferogramPrefix = self._insar.referenceBurstPrefix + '-' + self._insar.secondaryBurstPrefix
resampleBursts(referenceSwath,
secondarySwath,
self._insar.referenceBurstPrefix,
self._insar.secondaryBurstPrefix,
secondaryBurstResampledDir,
interferogramDir,
self._insar.referenceBurstPrefix,
self._insar.secondaryBurstPrefix,
self._insar.secondaryBurstPrefix,
interferogramPrefix,
self._insar.rangeOffset,
self._insar.azimuthOffset,
rangeOffsetResidual=rangeOffset,
azimuthOffsetResidual=azimuthOffset)
##################################################
# mosaic burst amplitudes and interferograms
##################################################
os.chdir(secondaryBurstResampledDir)
mosaicBurstAmplitude(referenceSwath,
self._insar.secondaryBurstPrefix,
self._insar.secondaryMagnitude,
numberOfLooksThreshold=4)
os.chdir('../')
os.chdir(interferogramDir)
mosaicBurstInterferogram(referenceSwath,
interferogramPrefix,
self._insar.interferogram,
numberOfLooksThreshold=4)
os.chdir('../')
##################################################
# final amplitude and interferogram
##################################################
amp = np.zeros((referenceSwath.numberOfLines,
2 * referenceSwath.numberOfSamples),
dtype=np.float32)
amp[0:, 1:referenceSwath.numberOfSamples*2:2] = np.fromfile(os.path.join(secondaryBurstResampledDir, self._insar.secondaryMagnitude), \
dtype=np.float32).reshape(referenceSwath.numberOfLines, referenceSwath.numberOfSamples)
amp[0:, 0:referenceSwath.numberOfSamples*2:2] = np.fromfile(os.path.join(self._insar.referenceBurstPrefix, self._insar.referenceMagnitude), \
dtype=np.float32).reshape(referenceSwath.numberOfLines, referenceSwath.numberOfSamples)
amp.astype(np.float32).tofile(self._insar.amplitude)
create_xml(self._insar.amplitude, referenceSwath.numberOfSamples,
referenceSwath.numberOfLines, 'amp')
os.rename(
os.path.join(interferogramDir, self._insar.interferogram),
self._insar.interferogram)
os.rename(
os.path.join(interferogramDir,
self._insar.interferogram + '.vrt'),
self._insar.interferogram + '.vrt')
os.rename(
os.path.join(interferogramDir,
self._insar.interferogram + '.xml'),
self._insar.interferogram + '.xml')
os.chdir('../')
os.chdir('../')
###############################################################################
catalog.printToLog(logger, "runCoregCc")
self._insar.procDoc.addAllFromCatalog(catalog)
def mergeBursts(frame, fileList, outfile, method='top'):
'''
Merge burst products into single file.
Simple numpy based stitching
'''
###Check against metadata
if frame.numberOfBursts != len(fileList):
print(
'Warning : Number of burst products does not appear to match number of bursts in metadata'
)
t0 = frame.bursts[0].sensingStart
dt = frame.bursts[0].azimuthTimeInterval
width = frame.bursts[0].numberOfSamples
#######
tstart = frame.bursts[0].sensingStart
tend = frame.bursts[-1].sensingStop
nLines = int(np.round((tend - tstart).total_seconds() / dt)) + 1
print('Expected total nLines: ', nLines)
img = isceobj.createImage()
img.load(fileList[0] + '.xml')
bands = img.bands
scheme = img.scheme
npType = IML.NUMPY_type(img.dataType)
azMasterOff = []
for index in range(frame.numberOfBursts):
burst = frame.bursts[index]
soff = burst.sensingStart + datetime.timedelta(
seconds=(burst.firstValidLine * dt))
start = int(np.round((soff - tstart).total_seconds() / dt))
end = start + burst.numValidLines
azMasterOff.append([start, end])
print('Burst: ', index, [start, end])
if index == 0:
linecount = start
outMap = IML.memmap(outfile,
mode='write',
nchannels=bands,
nxx=width,
nyy=nLines,
scheme=scheme,
dataType=npType)
for index in range(frame.numberOfBursts):
curBurst = frame.bursts[index]
curLimit = azMasterOff[index]
curMap = IML.mmapFromISCE(fileList[index], logging)
#####If middle burst
if index > 0:
topBurst = frame.bursts[index - 1]
topLimit = azMasterOff[index - 1]
topMap = IML.mmapFromISCE(fileList[index - 1], logging)
olap = topLimit[1] - curLimit[0]
print("olap: ", olap)
if olap <= 0:
raise Exception('No Burst Overlap')
for bb in range(bands):
topData = topMap.bands[bb][
topBurst.firstValidLine:topBurst.firstValidLine +
topBurst.numValidLines, :]
curData = curMap.bands[bb][
curBurst.firstValidLine:curBurst.firstValidLine +
curBurst.numValidLines, :]
im1 = topData[-olap:, :]
im2 = curData[:olap, :]
if method == 'avg':
data = 0.5 * (im1 + im2)
elif method == 'top':
data = im1
elif method == 'bot':
data = im2
else:
raise Exception('Method should be top/bot/avg')
outMap.bands[bb][linecount:linecount + olap, :] = data
tlim = olap
else:
tlim = 0
linecount += tlim
if index != (frame.numberOfBursts - 1):
botBurst = frame.bursts[index + 1]
botLimit = azMasterOff[index + 1]
olap = curLimit[1] - botLimit[0]
if olap < 0:
raise Exception('No Burst Overlap')
blim = botLimit[0] - curLimit[0]
else:
blim = curBurst.numValidLines
lineout = blim - tlim
for bb in range(bands):
curData = curMap.bands[bb][
curBurst.firstValidLine:curBurst.firstValidLine +
curBurst.numValidLines, :]
outMap.bands[bb][linecount:linecount +
lineout, :] = curData[tlim:blim, :]
linecount += lineout
curMap = None
topMap = None
IML.renderISCEXML(outfile, bands, nLines, width, img.dataType, scheme)
oimg = isceobj.createImage()
oimg.load(outfile + '.xml')
oimg.imageType = img.imageType
oimg.renderHdr()
try:
outMap.bands[0].base.base.flush()
except:
pass
def runGeo2rdrGPU(info, rdict, misreg_az=0.0, misreg_rg=0.0):
from zerodop.GPUgeo2rdr.GPUgeo2rdr import PyGeo2rdr
from isceobj.Planet.Planet import Planet
from iscesys import DateTimeUtil as DTU
latImage = isceobj.createImage()
latImage.load(rdict['lat'] + '.xml')
latImage.setAccessMode('READ')
latImage.createImage()
lonImage = isceobj.createImage()
lonImage.load(rdict['lon'] + '.xml')
lonImage.setAccessMode('READ')
lonImage.createImage()
demImage = isceobj.createImage()
demImage.load(rdict['hgt'] + '.xml')
demImage.setAccessMode('READ')
demImage.createImage()
misreg_az = misreg_az * info.azimuthTimeInterval
delta = datetime.timedelta(seconds=misreg_az)
print('Additional time offset applied in geo2rdr: {0} secs'.format(
misreg_az))
print(
'Additional range offset applied in geo2rdr: {0} m'.format(misreg_rg))
#####Run Geo2rdr
planet = Planet(pname='Earth')
grdr = PyGeo2rdr()
grdr.setRangePixelSpacing(info.rangePixelSize)
grdr.setPRF(1.0 / info.azimuthTimeInterval)
grdr.setRadarWavelength(info.radarWavelength)
grdr.createOrbit(0, len(info.orbit.stateVectors.list))
count = 0
for sv in info.orbit.stateVectors.list:
td = DTU.seconds_since_midnight(sv.getTime())
pos = sv.getPosition()
vel = sv.getVelocity()
grdr.setOrbitVector(count, td, pos[0], pos[1], pos[2], vel[0], vel[1],
vel[2])
count += 1
grdr.setOrbitMethod(0)
grdr.setWidth(info.numberOfSamples)
grdr.setLength(info.numberOfLines)
grdr.setSensingStart(DTU.seconds_since_midnight(info.sensingStart - delta))
grdr.setRangeFirstSample(info.startingRange - misreg_rg)
grdr.setNumberRangeLooks(1)
grdr.setNumberAzimuthLooks(1)
grdr.setEllipsoidMajorSemiAxis(planet.ellipsoid.a)
grdr.setEllipsoidEccentricitySquared(planet.ellipsoid.e2)
grdr.createPoly(0, 0., 1.)
grdr.setPolyCoeff(0, 0.)
grdr.setDemLength(demImage.getLength())
grdr.setDemWidth(demImage.getWidth())
grdr.setBistaticFlag(0)
rangeOffsetImage = isceobj.createImage()
rangeOffsetImage.setFilename(rdict['rangeOffName'])
rangeOffsetImage.setAccessMode('write')
rangeOffsetImage.setDataType('FLOAT')
rangeOffsetImage.setCaster('write', 'DOUBLE')
rangeOffsetImage.setWidth(demImage.width)
rangeOffsetImage.createImage()
azimuthOffsetImage = isceobj.createImage()
azimuthOffsetImage.setFilename(rdict['azOffName'])
azimuthOffsetImage.setAccessMode('write')
azimuthOffsetImage.setDataType('FLOAT')
azimuthOffsetImage.setCaster('write', 'DOUBLE')
azimuthOffsetImage.setWidth(demImage.width)
azimuthOffsetImage.createImage()
grdr.setLatAccessor(latImage.getImagePointer())
grdr.setLonAccessor(lonImage.getImagePointer())
grdr.setHgtAccessor(demImage.getImagePointer())
grdr.setAzAccessor(0)
grdr.setRgAccessor(0)
grdr.setAzOffAccessor(azimuthOffsetImage.getImagePointer())
grdr.setRgOffAccessor(rangeOffsetImage.getImagePointer())
grdr.geo2rdr()
rangeOffsetImage.finalizeImage()
rangeOffsetImage.renderHdr()
azimuthOffsetImage.finalizeImage()
azimuthOffsetImage.renderHdr()
latImage.finalizeImage()
lonImage.finalizeImage()
demImage.finalizeImage()
return
pass
def multilook(infile,
outname=None,
alks=5,
rlks=15,
multilook_tool="isce",
no_data=None):
'''
Take looks.
'''
if multilook_tool == "gdal":
from osgeo import gdal
print("multi looking using gdal ...")
if outname is None:
spl = os.path.splitext(infile)
ext = '.{0}alks_{1}rlks'.format(alks, rlks)
outname = spl[0] + ext + spl[1]
print(infile)
ds = gdal.Open(infile + ".vrt", gdal.GA_ReadOnly)
xSize = ds.RasterXSize
ySize = ds.RasterYSize
outXSize = xSize / int(rlks)
outYSize = ySize / int(alks)
if no_data:
gdalTranslateOpts = gdal.TranslateOptions(format="ENVI",
width=outXSize,
height=outYSize,
noData=no_data)
else:
gdalTranslateOpts = gdal.TranslateOptions(format="ENVI",
width=outXSize,
height=outYSize)
gdal.Translate(outname, ds, options=gdalTranslateOpts)
ds = None
ds = gdal.Open(outname, gdal.GA_ReadOnly)
gdal.Translate(outname + ".vrt",
ds,
options=gdal.TranslateOptions(format="VRT"))
ds = None
else:
from mroipac.looks.Looks import Looks
print('Multilooking {0} ...'.format(infile))
inimg = isceobj.createImage()
inimg.load(infile + '.xml')
if outname is None:
spl = os.path.splitext(inimg.filename)
ext = '.{0}alks_{1}rlks'.format(alks, rlks)
outname = spl[0] + ext + spl[1]
lkObj = Looks()
lkObj.setDownLooks(alks)
lkObj.setAcrossLooks(rlks)
lkObj.setInputImage(inimg)
lkObj.setOutputFilename(outname)
lkObj.looks()
return outname
def topoGPU(referenceTrack, numberRangeLooks, numberAzimuthLooks, demFile, latFile, lonFile, hgtFile, losFile):
'''
Try with GPU module.
'''
import datetime
import numpy as np
from isceobj.Planet.Planet import Planet
from zerodop.GPUtopozero.GPUtopozero import PyTopozero
from isceobj.Util.Poly2D import Poly2D
from iscesys import DateTimeUtil as DTU
pointingDirection = {'right': -1, 'left' :1}
#creat poynomials
polyDoppler = Poly2D(name='topsApp_dopplerPoly')
polyDoppler.setWidth(referenceTrack.numberOfSamples)
polyDoppler.setLength(referenceTrack.numberOfLines)
polyDoppler.setNormRange(1.0)
polyDoppler.setNormAzimuth(1.0)
polyDoppler.setMeanRange(0.0)
polyDoppler.setMeanAzimuth(0.0)
polyDoppler.initPoly(rangeOrder=0,azimuthOrder=0, coeffs=[[0.]])
polyDoppler.createPoly2D()
slantRangeImage = Poly2D()
slantRangeImage.setWidth(referenceTrack.numberOfSamples)
slantRangeImage.setLength(referenceTrack.numberOfLines)
slantRangeImage.setNormRange(1.0)
slantRangeImage.setNormAzimuth(1.0)
slantRangeImage.setMeanRange(0.)
slantRangeImage.setMeanAzimuth(0.)
slantRangeImage.initPoly(rangeOrder=1,azimuthOrder=0,
coeffs=[[referenceTrack.startingRange + (numberRangeLooks-1.0)/2.0*referenceTrack.rangePixelSize,numberRangeLooks * referenceTrack.rangePixelSize]])
slantRangeImage.createPoly2D()
#creat images
latImage = isceobj.createImage()
latImage.initImage(latFile, 'write', referenceTrack.numberOfSamples, 'DOUBLE')
latImage.createImage()
lonImage = isceobj.createImage()
lonImage.initImage(lonFile, 'write', referenceTrack.numberOfSamples, 'DOUBLE')
lonImage.createImage()
losImage = isceobj.createImage()
losImage.initImage(losFile, 'write', referenceTrack.numberOfSamples, 'FLOAT', bands=2, scheme='BIL')
losImage.setCaster('write', 'DOUBLE')
losImage.createImage()
heightImage = isceobj.createImage()
heightImage.initImage(hgtFile, 'write', referenceTrack.numberOfSamples, 'DOUBLE')
heightImage.createImage()
demImage = isceobj.createDemImage()
demImage.load(demFile + '.xml')
demImage.setCaster('read', 'FLOAT')
demImage.createImage()
#compute a few things
t0 = referenceTrack.sensingStart + datetime.timedelta(seconds=(numberAzimuthLooks-1.0)/2.0*referenceTrack.azimuthLineInterval)
orb = referenceTrack.orbit
pegHdg = np.radians( orb.getENUHeading(t0))
elp = Planet(pname='Earth').ellipsoid
#call gpu topo
topo = PyTopozero()
topo.set_firstlat(demImage.getFirstLatitude())
topo.set_firstlon(demImage.getFirstLongitude())
topo.set_deltalat(demImage.getDeltaLatitude())
topo.set_deltalon(demImage.getDeltaLongitude())
topo.set_major(elp.a)
topo.set_eccentricitySquared(elp.e2)
topo.set_rSpace(numberRangeLooks * referenceTrack.rangePixelSize)
topo.set_r0(referenceTrack.startingRange + (numberRangeLooks-1.0)/2.0*referenceTrack.rangePixelSize)
topo.set_pegHdg(pegHdg)
topo.set_prf(1.0 / (numberAzimuthLooks*referenceTrack.azimuthLineInterval))
topo.set_t0(DTU.seconds_since_midnight(t0))
topo.set_wvl(referenceTrack.radarWavelength)
topo.set_thresh(.05)
topo.set_demAccessor(demImage.getImagePointer())
topo.set_dopAccessor(polyDoppler.getPointer())
topo.set_slrngAccessor(slantRangeImage.getPointer())
topo.set_latAccessor(latImage.getImagePointer())
topo.set_lonAccessor(lonImage.getImagePointer())
topo.set_losAccessor(losImage.getImagePointer())
topo.set_heightAccessor(heightImage.getImagePointer())
topo.set_incAccessor(0)
topo.set_maskAccessor(0)
topo.set_numIter(25)
topo.set_idemWidth(demImage.getWidth())
topo.set_idemLength(demImage.getLength())
topo.set_ilrl(pointingDirection[referenceTrack.pointingDirection])
topo.set_extraIter(10)
topo.set_length(referenceTrack.numberOfLines)
topo.set_width(referenceTrack.numberOfSamples)
topo.set_nRngLooks(1)
topo.set_nAzLooks(1)
topo.set_demMethod(5) # BIQUINTIC METHOD
topo.set_orbitMethod(0) # HERMITE
# Need to simplify orbit stuff later
nvecs = len(orb._stateVectors)
topo.set_orbitNvecs(nvecs)
topo.set_orbitBasis(1) # Is this ever different?
topo.createOrbit() # Initializes the empty orbit to the right allocated size
count = 0
for sv in orb._stateVectors:
td = DTU.seconds_since_midnight(sv.getTime())
pos = sv.getPosition()
vel = sv.getVelocity()
topo.set_orbitVector(count,td,pos[0],pos[1],pos[2],vel[0],vel[1],vel[2])
count += 1
topo.runTopo()
#tidy up
latImage.addDescription('Pixel-by-pixel latitude in degrees.')
latImage.finalizeImage()
latImage.renderHdr()
lonImage.addDescription('Pixel-by-pixel longitude in degrees.')
lonImage.finalizeImage()
lonImage.renderHdr()
heightImage.addDescription('Pixel-by-pixel height in meters.')
heightImage.finalizeImage()
heightImage.renderHdr()
descr = '''Two channel Line-Of-Sight geometry image (all angles in degrees). Represents vector drawn from target to platform.
Channel 1: Incidence angle measured from vertical at target (always +ve).
Channel 2: Azimuth angle measured from North in Anti-clockwise direction.'''
losImage.setImageType('bil')
losImage.addDescription(descr)
losImage.finalizeImage()
losImage.renderHdr()
demImage.finalizeImage()
if slantRangeImage:
try:
slantRangeImage.finalizeImage()
except:
pass
def runCoherence(self, method="phase_gradient"):
logger.info("Calculating Coherence")
import os
resampAmpImage = os.path.join(self.insar.ifgDirname,
self.insar.ifgFilename)
topoflatIntFilename = os.path.join(self.insar.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'
# Initialize the amplitude
# resampAmpImage = self.insar.resampAmpImage
# ampImage = isceobj.createAmpImage()
# IU.copyAttributes(resampAmpImage, ampImage)
# ampImage.setAccessMode('read')
# ampImage.createImage()
# ampImage = self.insar.getResampOnlyAmp().copy(access_mode='read')
ampImage = isceobj.createImage()
ampImage.load(resampAmpImage + '.xml')
ampImage.setAccessMode('READ')
ampImage.createImage()
# Initialize the flattened inteferogram
# topoflatIntFilename = self.insar.topophaseFlatFilename
intImage = isceobj.createImage()
intImage.load(topoflatIntFilename + '.xml')
intImage.setAccessMode('READ')
intImage.createImage()
# widthInt = self.insar.resampIntImage.getWidth()
# intImage.setFilename(topoflatIntFilename)
# intImage.setWidth(widthInt)
# intImage.setAccessMode('read')
# intImage.createImage()
# Create the coherence image
cohFilename = topoflatIntFilename.replace('.flat', '.cor')
cohImage = isceobj.createOffsetImage()
cohImage.setFilename(cohFilename)
cohImage.setWidth(intImage.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)
cohImage.finalizeImage()
intImage.finalizeImage()
ampImage.finalizeImage()
cor.calculateCorrelation()
# NEW COMMANDS added by YL --start
import subprocess
subprocess.getoutput(
'MULTILOOK_FILTER_ISCE.py -a ./interferogram/topophase.amp -c ./interferogram/topophase.cor'
)
subprocess.getoutput(
'CROP_ISCE_stripmapApp.py -a ./interferogram/topophase.amp -c ./interferogram/topophase.cor'
)
subprocess.getoutput(
'imageMath.py -e="a_0;a_1" --a ./interferogram/topophase.amp -o ./interferogram/resampOnlyImage1.amp -s BIL -t FLOAT'
)
self.geocode_list += ['./interferogram/resampOnlyImage1.amp']
# NEW COMMANDS added by YL --end
# try:
# CORRELATION_METHOD[method](cor)
# except KeyError:
# print("Unrecognized correlation method")
# sys.exit(1)
# pass
return None
def runResampleSlc(self, kind='coarse'):
'''
Kind can either be coarse, refined or fine.
'''
if kind not in ['coarse', 'refined', 'fine']:
raise Exception(
'Unknown operation type {0} in runResampleSlc'.format(kind))
if kind == 'fine':
if not (self.doRubbersheetingRange | self.doRubbersheetingAzimuth
): # Modified by V. Brancato 10.10.2019
print('Rubber sheeting not requested, skipping resampling ....')
return
logger.info("Resampling slave SLC")
slaveFrame = self._insar.loadProduct(self._insar.slaveSlcCropProduct)
masterFrame = self._insar.loadProduct(self._insar.masterSlcCropProduct)
inimg = isceobj.createSlcImage()
inimg.load(slaveFrame.getImage().filename + '.xml')
inimg.setAccessMode('READ')
prf = slaveFrame.PRF
doppler = slaveFrame._dopplerVsPixel
coeffs = [2 * np.pi * val / prf for val in doppler]
dpoly = Poly2D()
dpoly.initPoly(rangeOrder=len(coeffs) - 1, azimuthOrder=0, coeffs=[coeffs])
rObj = stdproc.createResamp_slc()
rObj.slantRangePixelSpacing = slaveFrame.getInstrument().getRangePixelSize(
)
rObj.radarWavelength = slaveFrame.getInstrument().getRadarWavelength()
rObj.dopplerPoly = dpoly
# for now let's start with None polynomial. Later this should change to
# the misregistration polynomial
misregFile = os.path.join(self.insar.misregDirname,
self.insar.misregFilename)
if ((kind in ['refined', 'fine'])
and os.path.exists(misregFile + '_az.xml')):
azpoly = self._insar.loadProduct(misregFile + '_az.xml')
rgpoly = self._insar.loadProduct(misregFile + '_rg.xml')
else:
print(misregFile, " does not exist.")
azpoly = None
rgpoly = None
rObj.azimuthOffsetsPoly = azpoly
rObj.rangeOffsetsPoly = rgpoly
rObj.imageIn = inimg
#Since the app is based on geometry module we expect pixel-by-pixel offset
#field
offsetsDir = self.insar.offsetsDirname
# Modified by V. Brancato 10.10.2019
#rgname = os.path.join(offsetsDir, self.insar.rangeOffsetFilename)
if kind in ['coarse', 'refined']:
azname = os.path.join(offsetsDir, self.insar.azimuthOffsetFilename)
rgname = os.path.join(offsetsDir, self.insar.rangeOffsetFilename)
flatten = True
else:
azname = os.path.join(offsetsDir,
self.insar.azimuthRubbersheetFilename)
if self.doRubbersheetingRange:
print(
'Rubbersheeting in range is turned on, taking the cross-correlation offsets'
)
print('Setting Flattening to False')
rgname = os.path.join(offsetsDir,
self.insar.rangeRubbersheetFilename)
flatten = False
else:
print(
'Rubbersheeting in range is turned off, taking range geometric offsets'
)
rgname = os.path.join(offsetsDir, self.insar.rangeOffsetFilename)
flatten = True
rngImg = isceobj.createImage()
rngImg.load(rgname + '.xml')
rngImg.setAccessMode('READ')
aziImg = isceobj.createImage()
aziImg.load(azname + '.xml')
aziImg.setAccessMode('READ')
width = rngImg.getWidth()
length = rngImg.getLength()
# Modified by V. Brancato 10.10.2019
#flatten = True
rObj.flatten = flatten
rObj.outputWidth = width
rObj.outputLines = length
rObj.residualRangeImage = rngImg
rObj.residualAzimuthImage = aziImg
if masterFrame is not None:
rObj.startingRange = slaveFrame.startingRange
rObj.referenceStartingRange = masterFrame.startingRange
rObj.referenceSlantRangePixelSpacing = masterFrame.getInstrument(
).getRangePixelSize()
rObj.referenceWavelength = masterFrame.getInstrument(
).getRadarWavelength()
# preparing the output directory for coregistered slave slc
coregDir = self.insar.coregDirname
if os.path.isdir(coregDir):
logger.info('Geometry directory {0} already exists.'.format(coregDir))
else:
os.makedirs(coregDir)
# output file name of the coregistered slave slc
img = slaveFrame.getImage()
if kind == 'coarse':
coregFilename = os.path.join(coregDir, self._insar.coarseCoregFilename)
elif kind == 'refined':
coregFilename = os.path.join(coregDir,
self._insar.refinedCoregFilename)
elif kind == 'fine':
coregFilename = os.path.join(coregDir, self._insar.fineCoregFilename)
else:
print('Exception: Should not have gotten to this stage')
imgOut = isceobj.createSlcImage()
imgOut.setWidth(width)
imgOut.filename = coregFilename
imgOut.setAccessMode('write')
rObj.resamp_slc(imageOut=imgOut)
imgOut.renderHdr()
return
def main(iargs=None):
inps = cmdLineParse(iargs)
'''
Estimate azimuth misregistration.
'''
#catalog = isceobj.Catalog.createCatalog(self._insar.procDoc.name)
#master = self._insar.loadProduct( self._insar.masterSlcProduct + '.xml' )
#minBurst, maxBurst = self._insar.commonMasterBurstLimits
#slaveBurstStart, slaveBurstEnd = self._insar.commonSlaveBurstLimits
esdPath = inps.esdDirname
swathList = ut.getSwathList(esdPath)
alks = inps.esdAzimuthLooks
rlks = inps.esdRangeLooks
#esdPath = esdPath.split()
val = []
#for esddir in esdPath:
for swath in swathList:
esddir = os.path.join(esdPath, 'IW{0}'.format(swath))
freqFiles = glob.glob(os.path.join(esddir,'freq_??.bin'))
freqFiles.sort()
minBurst = int(os.path.basename(freqFiles[0]).split('.')[0][-2:])
maxBurst = int(os.path.basename(freqFiles[-1]).split('.')[0][-2:])
#maxBurst = maxBurst - 1
combIntName = os.path.join(esddir, 'combined.int')
combFreqName = os.path.join(esddir, 'combined_freq.bin')
combCorName = os.path.join(esddir, 'combined.cor')
combOffName = os.path.join(esddir, 'combined.off')
for ff in [combIntName, combFreqName, combCorName, combOffName]:
if os.path.exists(ff):
os.remove(ff)
# val = []
lineCount = 0
for ii in range(minBurst, maxBurst):
intname = os.path.join(esddir, 'overlap_%02d.%dalks_%drlks.int'%(ii+1, alks,rlks))
freqname = os.path.join(esddir, 'freq_%02d.%dalks_%drlks.bin'%(ii+1,alks,rlks))
corname = os.path.join(esddir, 'overlap_%02d.%dalks_%drlks.cor'%(ii+1, alks, rlks))
img = isceobj.createImage()
img.load(intname + '.xml')
width = img.getWidth()
length = img.getLength()
ifg = np.fromfile(intname, dtype=np.complex64).reshape((-1,width))
freq = np.fromfile(freqname, dtype=np.float32).reshape((-1,width))
cor = np.fromfile(corname, dtype=np.float32).reshape((-1,width))
with open(combIntName, 'ab') as fid:
ifg.tofile(fid)
with open(combFreqName, 'ab') as fid:
freq.tofile(fid)
with open(combCorName, 'ab') as fid:
cor.tofile(fid)
off = np.angle(ifg) / freq
with open(combOffName, 'ab') as fid:
off.astype(np.float32).tofile(fid)
lineCount += length
mask = (np.abs(ifg) > 0) * (cor > inps.esdCoherenceThreshold)
vali = off[mask]
val = np.hstack((val, vali))
img = isceobj.createIntImage()
img.filename = combIntName
img.setWidth(width)
img.setAccessMode('READ')
img.renderHdr()
for fname in [combFreqName, combCorName, combOffName]:
img = isceobj.createImage()
img.bands = 1
img.scheme = 'BIP'
img.dataType = 'FLOAT'
img.filename = fname
img.setWidth(width)
img.setAccessMode('READ')
img.renderHdr()
if val.size == 0 :
raise Exception('Coherence threshold too strict. No points left for reliable ESD estimate')
medianval = np.median(val)
meanval = np.mean(val)
stdval = np.std(val)
hist, bins = np.histogram(val, 50, normed=1)
center = 0.5*(bins[:-1] + bins[1:])
debugplot = True
try:
import matplotlib as mpl
mpl.use('Agg')
import matplotlib.pyplot as plt
except:
print('Matplotlib could not be imported. Skipping debug plot...')
debugplot = False
if debugplot:
####Plotting
plt.figure()
plt.bar(center, hist, align='center', width = 0.7*(bins[1] - bins[0]))
plt.xlabel('Azimuth shift in pixels')
plt.savefig( os.path.join(esddir, 'ESDmisregistration.png'))
plt.close()
# catalog.addItem('Median', medianval, 'esd')
# catalog.addItem('Mean', meanval, 'esd')
# catalog.addItem('Std', stdval, 'esd')
# catalog.addItem('coherence threshold', self.esdCoherenceThreshold, 'esd')
# catalog.addItem('number of coherent points', val.size, 'esd')
# catalog.printToLog(logger, "runESD")
# self._insar.procDoc.addAllFromCatalog(catalog)
# slaveTimingCorrection = medianval * master.bursts[0].azimuthTimeInterval
outputDir = os.path.dirname(inps.output)
if not os.path.exists(outputDir):
os.makedirs(outputDir)
with open(inps.output, 'w') as f:
f.write('median : '+str(medianval) +'\n')
f.write('mean : '+str(meanval)+'\n')
f.write('std : '+str(stdval)+'\n')
f.write('coherence threshold : '+str(inps.esdCoherenceThreshold)+'\n')
f.write('mumber of coherent points : '+str(len(val))+'\n')
def runUnwrap(infile,
outfile,
corfile,
config,
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
wrapName = infile
unwrapName = outfile
img = isceobj.createImage()
img.load(infile + '.xml')
wavelength = config['wavelength']
width = img.getWidth()
length = img.getLength()
earthRadius = config['earthRadius']
altitude = config['altitude']
rangeLooks = config['rglooks']
azimuthLooks = config['azlooks']
corrLooks = config['corrlooks']
maxComponents = 20
snp = Snaphu()
snp.setInitOnly(initOnly)
snp.setInput(wrapName)
snp.setOutput(unwrapName)
snp.setWidth(width)
snp.setCostMode(costMode)
snp.setEarthRadius(earthRadius)
snp.setWavelength(wavelength)
snp.setAltitude(altitude)
snp.setCorrfile(corfile)
snp.setInitMethod(initMethod)
snp.setCorrLooks(corrLooks)
snp.setMaxComponents(maxComponents)
snp.setDefoMaxCycles(defomax)
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.setLength(length)
outImage.setAccessMode('read')
#outImage.createImage()
outImage.renderHdr()
outImage.renderVRT()
#outImage.finalizeImage()
#####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
connImage.setWidth(width)
connImage.setLength(length)
connImage.setAccessMode('read')
connImage.setDataType('BYTE')
# connImage.createImage()
connImage.renderHdr()
connImage.renderVRT()
# connImage.finalizeImage()
return
def runTopoGPU(info, demImage, dop=None, nativedop=False, legendre=False):
from isceobj.Planet.Planet import Planet
from zerodop.GPUtopozero.GPUtopozero import PyTopozero
from isceobj import Constants as CN
from isceobj.Util.Poly2D import Poly2D
from iscesys import DateTimeUtil as DTU
## TODO GPU does not support shadow and layover and local inc file generation
full = False
if not os.path.isdir(info.outdir):
os.makedirs(info.outdir)
# define variables to be used later on
r0 = info.rangeFirstSample + (
(info.numberRangeLooks - 1) / 2) * info.slantRangePixelSpacing
tbef = info.sensingStart + datetime.timedelta(seconds=(
(info.numberAzimuthLooks - 1) / 2) / info.prf)
pegHdg = np.radians(info.orbit.getENUHeading(tbef))
width = info.width // info.numberRangeLooks
length = info.length // info.numberAzimuthLooks
dr = info.slantRangePixelSpacing * info.numberRangeLooks
# output file names
latFilename = info.latFilename
lonFilename = info.lonFilename
losFilename = info.losFilename
heightFilename = info.heightFilename
incFilename = info.incFilename
maskFilename = info.maskFilename
# orbit interpolator
if legendre:
omethod = 2 # LEGENDRE INTERPOLATION
else:
omethod = 0 # HERMITE INTERPOLATION
# tracking doppler specifications
if nativedop and (dop is not None):
try:
coeffs = dop._coeffs
except:
coeffs = dop
polyDoppler = Poly2D()
polyDoppler.setWidth(width)
polyDoppler.setLength(length)
polyDoppler.initPoly(rangeOrder=len(coeffs) - 1,
azimuthOrder=0,
coeffs=[coeffs])
else:
print('Zero doppler')
polyDoppler = Poly2D(name='stripmapStack_dopplerPoly')
polyDoppler.setWidth(width)
polyDoppler.setLength(length)
polyDoppler.setNormRange(1.0)
polyDoppler.setNormAzimuth(1.0)
polyDoppler.setMeanRange(0.0)
polyDoppler.setMeanAzimuth(0.0)
polyDoppler.initPoly(rangeOrder=0, azimuthOrder=0, coeffs=[[0.0]])
polyDoppler.createPoly2D()
# dem
demImage.setCaster('read', 'FLOAT')
demImage.createImage()
# slant range file
slantRangeImage = Poly2D()
slantRangeImage.setWidth(width)
slantRangeImage.setLength(length)
slantRangeImage.setNormRange(1.0)
slantRangeImage.setNormAzimuth(1.0)
slantRangeImage.setMeanRange(0.0)
slantRangeImage.setMeanAzimuth(0.0)
slantRangeImage.initPoly(rangeOrder=1, azimuthOrder=0, coeffs=[[r0, dr]])
slantRangeImage.createPoly2D()
# lat file
latImage = isceobj.createImage()
accessMode = 'write'
dataType = 'DOUBLE'
latImage.initImage(latFilename, accessMode, width, dataType)
latImage.createImage()
# lon file
lonImage = isceobj.createImage()
lonImage.initImage(lonFilename, accessMode, width, dataType)
lonImage.createImage()
# LOS file
losImage = isceobj.createImage()
dataType = 'FLOAT'
bands = 2
scheme = 'BIL'
losImage.initImage(losFilename,
accessMode,
width,
dataType,
bands=bands,
scheme=scheme)
losImage.setCaster('write', 'DOUBLE')
losImage.createImage()
# height file
heightImage = isceobj.createImage()
dataType = 'DOUBLE'
heightImage.initImage(heightFilename, accessMode, width, dataType)
heightImage.createImage()
# add inc and mask file if requested
if full:
incImage = isceobj.createImage()
dataType = 'FLOAT'
incImage.initImage(incFilename,
accessMode,
width,
dataType,
bands=bands,
scheme=scheme)
incImage.createImage()
incImagePtr = incImage.getImagePointer()
maskImage = isceobj.createImage()
dataType = 'BYTE'
bands = 1
maskImage.initImage(maskFilename,
accessMode,
width,
dataType,
bands=bands,
scheme=scheme)
maskImage.createImage()
maskImagePtr = maskImage.getImagePointer()
else:
incImagePtr = 0
maskImagePtr = 0
# initalize planet
elp = Planet(pname='Earth').ellipsoid
# initialize topo object and fill with parameters
topo = PyTopozero()
topo.set_firstlat(demImage.getFirstLatitude())
topo.set_firstlon(demImage.getFirstLongitude())
topo.set_deltalat(demImage.getDeltaLatitude())
topo.set_deltalon(demImage.getDeltaLongitude())
topo.set_major(elp.a)
topo.set_eccentricitySquared(elp.e2)
topo.set_rSpace(info.slantRangePixelSpacing)
topo.set_r0(r0)
topo.set_pegHdg(pegHdg)
topo.set_prf(info.prf)
topo.set_t0(DTU.seconds_since_midnight(tbef))
topo.set_wvl(info.radarWavelength)
topo.set_thresh(.05)
topo.set_demAccessor(demImage.getImagePointer())
topo.set_dopAccessor(polyDoppler.getPointer())
topo.set_slrngAccessor(slantRangeImage.getPointer())
topo.set_latAccessor(latImage.getImagePointer())
topo.set_lonAccessor(lonImage.getImagePointer())
topo.set_losAccessor(losImage.getImagePointer())
topo.set_heightAccessor(heightImage.getImagePointer())
topo.set_incAccessor(incImagePtr)
topo.set_maskAccessor(maskImagePtr)
topo.set_numIter(25)
topo.set_idemWidth(demImage.getWidth())
topo.set_idemLength(demImage.getLength())
topo.set_ilrl(info.lookSide)
topo.set_extraIter(10)
topo.set_length(length)
topo.set_width(width)
topo.set_nRngLooks(info.numberRangeLooks)
topo.set_nAzLooks(info.numberAzimuthLooks)
topo.set_demMethod(5) # BIQUINTIC METHOD
topo.set_orbitMethod(omethod)
# Need to simplify orbit stuff later
nvecs = len(info.orbit.stateVectors.list)
topo.set_orbitNvecs(nvecs)
topo.set_orbitBasis(1) # Is this ever different?
topo.createOrbit(
) # Initializes the empty orbit to the right allocated size
count = 0
for sv in info.orbit.stateVectors.list:
td = DTU.seconds_since_midnight(sv.getTime())
pos = sv.getPosition()
vel = sv.getVelocity()
topo.set_orbitVector(count, td, pos[0], pos[1], pos[2], vel[0], vel[1],
vel[2])
count += 1
# run topo
topo.runTopo()
# close the written files and add description etc
# lat file
latImage.addDescription('Pixel-by-pixel latitude in degrees.')
latImage.finalizeImage()
latImage.renderHdr()
# lon file
lonImage.addDescription('Pixel-by-pixel longitude in degrees.')
lonImage.finalizeImage()
lonImage.renderHdr()
# height file
heightImage.addDescription('Pixel-by-pixel height in meters.')
heightImage.finalizeImage()
heightImage.renderHdr()
# los file
descr = '''Two channel Line-Of-Sight geometry image (all angles in degrees). Represents vector drawn from target to platform.
Channel 1: Incidence angle measured from vertical at target (always +ve).
Channel 2: Azimuth angle measured from North in Anti-clockwise direction.'''
losImage.setImageType('bil')
losImage.addDescription(descr)
losImage.finalizeImage()
losImage.renderHdr()
# dem/ height file
demImage.finalizeImage()
# adding in additional files if requested
if full:
descr = '''Two channel angle file.
Channel 1: Angle between ray to target and the vertical at the sensor
Channel 2: Local incidence angle accounting for DEM slope at target'''
incImage.addDescription(descr)
incImage.finalizeImage()
incImage.renderHdr()
descr = 'Radar shadow-layover mask. 1 - Radar Shadow. 2 - Radar Layover. 3 - Both.'
maskImage.addDescription(descr)
maskImage.finalizeImage()
maskImage.renderHdr()
if slantRangeImage:
try:
slantRangeImage.finalizeImage()
except:
pass
def runMultilook(in_dir,
out_dir,
alks,
rlks,
in_ext='.rdr',
out_ext='.rdr',
method='gdal',
fbase_list=[
'hgt', 'incLocal', 'lat', 'lon', 'los', 'shadowMask',
'waterMask'
]):
"""
Multilook geometry files.
"""
from iscesys.Parsers.FileParserFactory import createFileParser
from mroipac.looks.Looks import Looks
msg = 'generate multilooked geometry files with alks={} and rlks={}'.format(
alks, rlks)
if method == 'isce':
msg += ' using mroipac.looks.Looks() ...'
else:
msg += ' using gdal.Translate() ...'
print('-' * 50 + '\n' + msg)
# create 'geom_master' directory
os.makedirs(out_dir, exist_ok=True)
# multilook files one by one
for fbase in fbase_list:
in_file = os.path.join(in_dir, '{}{}'.format(fbase, in_ext))
out_file = os.path.join(out_dir, '{}{}'.format(fbase, out_ext))
if all(os.path.isfile(in_file + ext) for ext in ['', '.vrt', '.xml']):
print('multilook {}'.format(in_file))
# option 1 - Looks module (isce)
if method == 'isce':
xmlProp = createFileParser('xml').parse(in_file + '.xml')[0]
if ('image_type' in xmlProp
and xmlProp['image_type'] == 'dem'):
inImage = isceobj.createDemImage()
else:
inImage = isceobj.createImage()
inImage.load(in_file + '.xml')
inImage.filename = in_file
lkObj = Looks()
lkObj.setDownLooks(alks)
lkObj.setAcrossLooks(rlks)
lkObj.setInputImage(inImage)
lkObj.setOutputFilename(out_file)
lkObj.looks()
# option 2 - gdal_translate (gdal)
elif method == 'gdal':
ds = gdal.Open(in_file, gdal.GA_ReadOnly)
in_wid = ds.RasterXSize
in_len = ds.RasterYSize
out_wid = int(in_wid / rlks)
out_len = int(in_len / alks)
src_wid = out_wid * rlks
src_len = out_len * alks
options_str = '-of ENVI -a_nodata 0 -outsize {ox} {oy} -srcwin 0 0 {sx} {sy} '.format(
ox=out_wid, oy=out_len, sx=src_wid, sy=src_len)
gdal.Translate(out_file, ds, options=options_str)
# generate ISCE .xml file
if not os.path.isfile(out_file + '.xml'):
cmd = 'gdal2isce_xml.py -i {}.vrt'.format(out_file)
print(cmd)
os.system(cmd)
else:
raise ValueError(
'un-supported multilook method: {}'.format(method))
# copy the full resolution xml/vrt file from ./merged/geom_master to ./geom_master
# to facilitate the number of looks extraction
# the file path inside .xml file is not, but should, updated
if in_file != out_file + '.full':
shutil.copy(in_file + '.xml', out_file + '.full.xml')
shutil.copy(in_file + '.vrt', out_file + '.full.vrt')
return out_dir
def resampleSlc(self,
masterFrame,
slaveFrame,
imageSlc2,
radarWavelength,
coregDir,
azoffname,
rgoffname,
azpoly=None,
rgpoly=None,
misreg=False):
logger.info("Resampling slave SLC")
imageSlc1 = masterFrame.getImage().filename
inimg = isceobj.createSlcImage()
inimg.load(imageSlc2 + '.xml')
inimg.setAccessMode('READ')
prf = slaveFrame.PRF
doppler = slaveFrame._dopplerVsPixel
factor = 1.0 # this should be zero for zero Doppler SLC.
coeffs = [factor * 2 * np.pi * val / prf / prf for val in doppler]
dpoly = Poly2D()
dpoly.initPoly(rangeOrder=len(coeffs) - 1, azimuthOrder=0, coeffs=[coeffs])
rObj = stdproc.createResamp_slc()
rObj.slantRangePixelSpacing = slaveFrame.getInstrument().getRangePixelSize(
)
#rObj.radarWavelength = slaveFrame.getInstrument().getRadarWavelength()
rObj.radarWavelength = radarWavelength
rObj.dopplerPoly = dpoly
# for now let's start with None polynomial. Later this should change to
# the misregistration polynomial
rObj.azimuthOffsetsPoly = azpoly
rObj.rangeOffsetsPoly = rgpoly
rObj.imageIn = inimg
rngImg = isceobj.createImage()
rngImg.load(rgoffname + '.xml')
rngImg.setAccessMode('READ')
aziImg = isceobj.createImage()
aziImg.load(azoffname + '.xml')
aziImg.setAccessMode('READ')
width = rngImg.getWidth()
length = rngImg.getLength()
# Modified by V. Brancato on 10.14.2019 (if Rubbersheeting in range is turned on, flatten the interferogram during cross-correlation)
if not self.doRubbersheetingRange:
print(
'Rubber sheeting in range is turned off, flattening the interferogram during resampling'
)
flatten = True
print(flatten)
else:
print(
'Rubber sheeting in range is turned on, flattening the interferogram during interferogram formation'
)
flatten = False
print(flatten)
# end of Modification
rObj.flatten = flatten
rObj.outputWidth = width
rObj.outputLines = length
rObj.residualRangeImage = rngImg
rObj.residualAzimuthImage = aziImg
if masterFrame is not None:
rObj.startingRange = slaveFrame.startingRange
rObj.referenceStartingRange = masterFrame.startingRange
rObj.referenceSlantRangePixelSpacing = masterFrame.getInstrument(
).getRangePixelSize()
rObj.referenceWavelength = radarWavelength
# preparing the output directory for coregistered slave slc
#coregDir = self.insar.coregDirname
os.makedirs(coregDir, exist_ok=True)
# output file name of the coregistered slave slc
img = slaveFrame.getImage()
coregFilename = os.path.join(coregDir, os.path.basename(img.filename))
imgOut = isceobj.createSlcImage()
imgOut.setWidth(width)
imgOut.filename = coregFilename
imgOut.setAccessMode('write')
rObj.resamp_slc(imageOut=imgOut)
imgOut.renderHdr()
return coregFilename