Merge pull request #276 from yunjunz/offset
cuDenseOffsets.prep*Geom*: supp. full-reso file w/o .full in the nameLT1AB
Ryan Burns
GitHub
commit
a976d12c51
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@ -40,6 +40,8 @@ def createParser():
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help='Reference image')
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parser.add_argument('-s', '--secondary',type=str, dest='secondary', required=True,
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help='Secondary image')
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parser.add_argument('--fix-xml','--fix-image-xml', dest='fixImageXml', action='store_true',
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help='Fix the image file path in the XML file. Enable this if input files havee been moved.')
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parser.add_argument('--op','--outprefix','--output-prefix', type=str, dest='outprefix',
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default='offset', required=True,
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@ -166,12 +168,13 @@ def estimateOffsetField(reference, secondary, inps=None):
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return 0
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# update file path in xml file
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for fname in [reference, secondary]:
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fname = os.path.abspath(fname)
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img = IML.loadImage(fname)[0]
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img.filename = fname
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img.setAccessMode('READ')
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img.renderHdr()
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if inps.fixImageXml:
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for fname in [reference, secondary]:
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fname = os.path.abspath(fname)
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img = IML.loadImage(fname)[0]
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img.filename = fname
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img.setAccessMode('READ')
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img.renderHdr()
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###Loading the secondary image object
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sim = isceobj.createSlcImage()
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@ -382,14 +385,24 @@ def prepareGeometry(full_dir, out_dir, x_start, y_start, x_step, y_step, num_win
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x/y_step - int, output pixel step in column/row direction
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num_win_x/y - int, number of columns/rows
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"""
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full_dir = os.path.abspath(full_dir)
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out_dir = os.path.abspath(out_dir)
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# grab the file extension for full resolution file
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full_exts = ['.rdr.full','.rdr'] if full_dir != out_dir else ['.rdr.full']
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full_exts = [e for e in full_exts if os.path.isfile(os.path.join(full_dir, '{f}{e}'.format(f=fbases[0], e=e)))]
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if len(full_exts) == 0:
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raise ValueError('No full resolution {}.rdr* file found in: {}'.format(fbases[0], full_dir))
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full_ext = full_exts[0]
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print('-'*50)
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print('generate the corresponding multi-looked geometry datasets using gdal ...')
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in_files = [os.path.join(full_dir, '{}.rdr.full'.format(i)) for i in fbases]
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# input files
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in_files = [os.path.join(full_dir, '{f}{e}'.format(f=f, e=full_ext)) for f in fbases]
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in_files = [i for i in in_files if os.path.isfile(i)]
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if len(in_files) == 0:
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raise ValueError('No full resolution geometry file found in: {}'.format(full_dir))
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fbases = [os.path.basename(i).split('.')[0] for i in in_files]
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# output files
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out_files = [os.path.join(out_dir, '{}.rdr'.format(i)) for i in fbases]
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os.makedirs(out_dir, exist_ok=True)
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@ -26,6 +26,7 @@ noMCF = 'False'
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defoMax = '2'
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maxNodes = 72
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def createParser():
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parser = argparse.ArgumentParser( description='Preparing the directory structure and config files for stack processing of StripMap data')
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@ -42,7 +43,7 @@ def createParser():
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parser.add_argument('-m', '--reference_date', dest='referenceDate', type=str, default=None,
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help='Directory with reference acquisition')
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parser.add_argument('-t', '--time_threshold', dest='dtThr', type=float, default=10000.0,
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help='Time threshold (max temporal baseline in days)')
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@ -57,7 +58,7 @@ def createParser():
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parser.add_argument('-S', '--sensor', dest='sensor', type=str, required=False,
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help='SAR sensor used to define square multi-look pixels')
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parser.add_argument('-u', '--unw_method', dest='unwMethod', type=str, default='snaphu',
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parser.add_argument('-u', '--unw_method', dest='unwMethod', type=str, default='snaphu',
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help='unwrapping method (icu, snaphu, or snaphu2stage), no to skip phase unwrapping.')
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parser.add_argument('-f','--filter_strength', dest='filtStrength', type=str, default=filtStrength,
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@ -72,7 +73,7 @@ def createParser():
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iono.add_argument('-B', '--subband_bandwidth ', dest='bandWidth', type=str, default=None,
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help='sub-band band width')
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iono.add_argument('--filter_sigma_x', dest='filterSigmaX', type=str, default='100',
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iono.add_argument('--filter_sigma_x', dest='filterSigmaX', type=str, default='100',
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help='filter sigma for gaussian filtering the dispersive and nonDispersive phase')
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iono.add_argument('--filter_sigma_y', dest='filterSigmaY', type=str, default='100.0',
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@ -87,14 +88,14 @@ def createParser():
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iono.add_argument('--filter_kernel_rotation', dest='filterKernelRotation', type=str, default='0.0',
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help='rotation angle of the filter kernel in degrees (default = 0.0)')
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parser.add_argument('-W', '--workflow', dest='workflow', type=str, default='slc',
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parser.add_argument('-W', '--workflow', dest='workflow', type=str, default='slc',
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help='The InSAR processing workflow : (slc, interferogram, ionosphere)')
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parser.add_argument('-z', '--zero', dest='zerodop', action='store_true', default=False,
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parser.add_argument('-z', '--zero', dest='zerodop', action='store_true', default=False,
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help='Use zero doppler geometry for processing - Default : No')
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parser.add_argument('--nofocus', dest='nofocus', action='store_true', default=False,
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parser.add_argument('--nofocus', dest='nofocus', action='store_true', default=False,
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help='If input data is already focused to SLCs - Default : do focus')
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parser.add_argument('-c', '--text_cmd', dest='text_cmd', type=str, default='',
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parser.add_argument('-c', '--text_cmd', dest='text_cmd', type=str, default='',
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help='text command to be added to the beginning of each line of the run files. Example : source ~/.bash_profile;')
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parser.add_argument('-useGPU', '--useGPU', dest='useGPU',action='store_true', default=False,
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help='Allow App to use GPU when available')
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@ -102,18 +103,19 @@ def createParser():
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parser.add_argument('--summary', dest='summary', action='store_true', default=False, help='Show summary only')
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return parser
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def cmdLineParse(iargs = None):
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parser = createParser()
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inps = parser.parse_args(args=iargs)
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inps.slcDir = os.path.abspath(inps.slcDir)
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inps.workDir = os.path.abspath(inps.workDir)
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inps.dem = os.path.abspath(inps.dem)
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return inps
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def get_dates(inps):
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dirs = glob.glob(inps.slcDir+'/*')
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acuisitionDates = []
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for dirf in dirs:
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@ -134,13 +136,13 @@ def get_dates(inps):
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inps.referenceDate = acuisitionDates[0]
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secondaryDates = acuisitionDates.copy()
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secondaryDates.remove(inps.referenceDate)
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return acuisitionDates, inps.referenceDate, secondaryDates
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return acuisitionDates, inps.referenceDate, secondaryDates
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def slcStack(inps, acquisitionDates, stackReferenceDate, secondaryDates, pairs, splitFlag=False, rubberSheet=False):
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# A coregistered stack of SLCs
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i=0
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if inps.bbox:
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i+=1
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runObj = run()
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@ -149,7 +151,6 @@ def slcStack(inps, acquisitionDates, stackReferenceDate, secondaryDates, pairs,
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runObj.crop(acquisitionDates, config_prefix, native=not inps.zerodop, israw=not inps.nofocus)
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runObj.finalize()
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i+=1
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runObj = run()
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runObj.configure(inps, 'run_{:02d}_reference'.format(i))
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@ -190,40 +191,40 @@ def slcStack(inps, acquisitionDates, stackReferenceDate, secondaryDates, pairs,
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config_prefix = 'config_fineResamp_'
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runObj.secondarys_fine_resampleSlc(stackReferenceDate, secondaryDates, config_prefix, split=splitFlag)
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runObj.finalize()
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if rubberSheet:
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i+=1
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runObj = run()
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runObj.configure(inps, 'run_{:02d}_denseOffset'.format(i))
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config_prefix = 'config_denseOffset_'
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runObj.denseOffsets_Network(pairs, stackReferenceDate, secondaryDates, config_prefix)
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runObj.finalize()
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i+=1
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runObj = run()
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runObj.configure(inps, 'run_{:02d}_denseOffset'.format(i))
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config_prefix = 'config_denseOffset_'
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runObj.denseOffsets_Network(pairs, stackReferenceDate, secondaryDates, config_prefix)
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runObj.finalize()
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i+=1
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runObj = run()
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runObj.configure(inps, 'run_{:02d}_invertDenseOffsets'.format(i))
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runObj.invertDenseOffsets()
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runObj.finalize()
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i+=1
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runObj = run()
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runObj.configure(inps, 'run_{:02d}_resampleOffset'.format(i))
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config_prefix = 'config_resampOffsets_'
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runObj.resampleOffset(secondaryDates, config_prefix)
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runObj.finalize()
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i+=1
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runObj = run()
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runObj.configure(inps, 'run_{:02d}_invertDenseOffsets'.format(i))
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runObj.invertDenseOffsets()
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runObj.finalize()
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i+=1
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runObj = run()
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runObj.configure(inps, 'run_{:02d}_replaceOffsets'.format(i))
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runObj.replaceOffsets(secondaryDates)
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runObj.finalize()
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i+=1
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runObj = run()
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runObj.configure(inps, 'run_{:02d}_resampleOffset'.format(i))
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config_prefix = 'config_resampOffsets_'
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runObj.resampleOffset(secondaryDates, config_prefix)
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runObj.finalize()
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i+=1
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runObj = run()
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runObj.configure(inps, 'run_{:02d}_fineResamp'.format(i))
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config_prefix = 'config_fineResamp_'
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runObj.secondarys_fine_resampleSlc(stackReferenceDate, secondaryDates, config_prefix, split=splitFlag)
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runObj.finalize()
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i+=1
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runObj = run()
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runObj.configure(inps, 'run_{:02d}_replaceOffsets'.format(i))
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runObj.replaceOffsets(secondaryDates)
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runObj.finalize()
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i+=1
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runObj = run()
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runObj.configure(inps, 'run_{:02d}_fineResamp'.format(i))
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config_prefix = 'config_fineResamp_'
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runObj.secondarys_fine_resampleSlc(stackReferenceDate, secondaryDates, config_prefix, split=splitFlag)
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runObj.finalize()
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# adding the baseline grid generation
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i+=1
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@ -235,20 +236,22 @@ def slcStack(inps, acquisitionDates, stackReferenceDate, secondaryDates, pairs,
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return i
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def interferogramStack(inps, acquisitionDates, stackReferenceDate, secondaryDates, pairs):
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# an interferogram stack without ionosphere correction.
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# an interferogram stack without ionosphere correction.
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# coregistration is with geometry + const offset
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i = slcStack(inps, acquisitionDates, stackReferenceDate, secondaryDates, pairs, splitFlag=False, rubberSheet=False)
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i+=1
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runObj = run()
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runObj.configure(inps, 'run_{:02d}_igram'.format(i))
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config_prefix = 'config_igram_'
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low_or_high = "/"
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runObj.igrams_network(pairs, acquisitionDates, stackReferenceDate, low_or_high, config_prefix)
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runObj.igrams_network(pairs, acquisitionDates, stackReferenceDate, low_or_high, config_prefix)
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runObj.finalize()
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return
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def interferogramIonoStack(inps, acquisitionDates, stackReferenceDate, secondaryDates, pairs):
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@ -273,7 +276,7 @@ def interferogramIonoStack(inps, acquisitionDates, stackReferenceDate, secondary
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config_prefix = 'config_igram_'
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low_or_high = "/"
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runObj.igrams_network(pairs, acquisitionDates, stackReferenceDate, low_or_high, config_prefix)
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runObj.finalize()
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runObj.finalize()
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i+=1
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runObj = run()
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@ -297,69 +300,68 @@ def interferogramIonoStack(inps, acquisitionDates, stackReferenceDate, secondary
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config_prefix = 'config_iono_'
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lowBand = '/LowBand/'
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highBand = '/HighBand/'
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runObj.dispersive_nonDispersive(pairs, acquisitionDates, stackReferenceDate,
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lowBand, highBand, config_prefix)
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runObj.dispersive_nonDispersive(pairs, acquisitionDates, stackReferenceDate, lowBand, highBand, config_prefix)
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runObj.finalize()
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return
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def main(iargs=None):
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inps = cmdLineParse(iargs)
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# name of the folder of the coreg SLCs including baselines, SLC, geom_reference subfolders
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inps.stack_folder = 'merged'
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inps.dense_offsets_folder = 'dense_offsets'
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inps = cmdLineParse(iargs)
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# name of the folder of the coreg SLCs including baselines, SLC, geom_reference subfolders
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inps.stack_folder = 'merged'
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inps.dense_offsets_folder = 'dense_offsets'
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# check if a sensor is defined and update if needed azimuth looks to give square pixels
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ar=1
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if inps.sensor:
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if inps.sensor.lower() == "alos":
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ar=4
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print("Looks like " + inps.sensor.lower() + ", multi-look AR=" + str(ar))
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elif inps.sensor.lower() == "envisat" or inps.sensor.lower() == "ers":
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ar=5
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print("Looks like " + inps.sensor.lower() + ", multi-look AR=" + str(ar))
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else:
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print("Sensor is not hard-coded (ers, envisat, alos), will keep default alks")
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# sensor is not recognised, report to user and state default
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inps.alks = str(int(inps.alks)*int(ar))
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# getting the acquisitions
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acquisitionDates, stackReferenceDate, secondaryDates = get_dates(inps)
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configDir = os.path.join(inps.workDir,'configs')
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os.makedirs(configDir, exist_ok=True)
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runDir = os.path.join(inps.workDir,'run_files')
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os.makedirs(runDir, exist_ok=True)
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# check if a sensor is defined and update if needed azimuth looks to give square pixels
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ar=1
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if inps.sensor:
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if inps.sensor.lower() == "alos":
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ar=4
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print("Looks like " + inps.sensor.lower() + ", multi-look AR=" + str(ar))
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elif inps.sensor.lower() == "envisat" or inps.sensor.lower() == "ers":
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ar=5
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print("Looks like " + inps.sensor.lower() + ", multi-look AR=" + str(ar))
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else:
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print("Sensor is not hard-coded (ers, envisat, alos), will keep default alks")
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# sensor is not recognised, report to user and state default
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inps.alks = str(int(inps.alks)*int(ar))
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if inps.sensor.lower() == 'uavsar_stack': # don't try to calculate baselines for UAVSAR_STACK data
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pairs = selectPairs(inps,stackReferenceDate, secondaryDates, acquisitionDates,doBaselines=False)
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else:
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pairs = selectPairs(inps,stackReferenceDate, secondaryDates, acquisitionDates,doBaselines=True)
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print ('number of pairs: ', len(pairs))
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# getting the acquisitions
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acquisitionDates, stackReferenceDate, secondaryDates = get_dates(inps)
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configDir = os.path.join(inps.workDir,'configs')
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os.makedirs(configDir, exist_ok=True)
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runDir = os.path.join(inps.workDir,'run_files')
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os.makedirs(runDir, exist_ok=True)
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###If only a summary is requested quit after this
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if inps.summary:
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return
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if inps.sensor and inps.sensor.lower() == 'uavsar_stack': # don't try to calculate baselines for UAVSAR_STACK data
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pairs = selectPairs(inps,stackReferenceDate, secondaryDates, acquisitionDates,doBaselines=False)
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else:
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pairs = selectPairs(inps,stackReferenceDate, secondaryDates, acquisitionDates,doBaselines=True)
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print ('number of pairs: ', len(pairs))
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#if cropping is requested, then change the slc directory:
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inps.fullFrameSlcDir = inps.slcDir
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###If only a summary is requested quit after this
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if inps.summary:
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return
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if inps.bbox:
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inps.slcDir = inps.slcDir + "_crop"
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#############################
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#if cropping is requested, then change the slc directory:
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inps.fullFrameSlcDir = inps.slcDir
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if inps.workflow == 'slc':
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slcStack(inps, acquisitionDates, stackReferenceDate, secondaryDates, pairs, splitFlag=False, rubberSheet=False)
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if inps.bbox:
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inps.slcDir = inps.slcDir + "_crop"
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#############################
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elif inps.workflow == 'interferogram':
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interferogramStack(inps, acquisitionDates, stackReferenceDate, secondaryDates, pairs)
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if inps.workflow == 'slc':
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slcStack(inps, acquisitionDates, stackReferenceDate, secondaryDates, pairs, splitFlag=False, rubberSheet=False)
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elif inps.workflow == 'interferogram':
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interferogramStack(inps, acquisitionDates, stackReferenceDate, secondaryDates, pairs)
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elif inps.workflow == 'ionosphere':
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interferogramIonoStack(inps, acquisitionDates, stackReferenceDate, secondaryDates, pairs)
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return
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elif inps.workflow == 'ionosphere':
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interferogramIonoStack(inps, acquisitionDates, stackReferenceDate, secondaryDates, pairs)
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if __name__ == "__main__":
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# Main engine
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main()
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# Main engine
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main(sys.argv[1:])
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