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prepare_Sentinel1.py
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# -*- coding: utf-8 -*-
"""
B. Bookhagen, Nov 23, 2015 version 0.1
B. Bookhagen, May, 2017 version 0.11
"""
import subprocess, os, sys, shutil, math, glob, csv, datetime, time
import numpy as np
import xml.etree.ElementTree as ET
import matplotlib.pyplot as plt
from matplotlib.dates import YearLocator, MonthLocator, DateFormatter
import argparse
#import isce
#from isceobj.XmlUtil import FastXML as xml
from osgeo import gdal, gdalnumeric, osr
gdal.UseExceptions()
DEVNULL = open(os.devnull, 'wb')
conncomp_mean = []
conncomp_2use_idx = []
los_mean = []
los_min = []
los_max = []
los2_mean = []
los2_min = []
los2_max = []
parser = argparse.ArgumentParser(description='Process Sentinel1 radar data and generate interferograms (B. Bookhagen, [email protected], v0.11)')
parser.add_argument('indir', help='directory to be processed (e.g., /raid/InSAR/Sentinel1A/NWArg)')
parser.add_argument('baseline', type=int, default=500, help='perpendicular baseline threshold in m')
parser.add_argument('--dem', dest="dem", default = "", help='DEM to be used for processing (e.g., --dem /raid/InSAR/TerraSAR-X/Pocitos/SRTM1/demLat_S23_S26_Lon_W069_W066_f2.dem.wgs84.xml)')
parser.add_argument('--dem_res', type=int, default=30, dest="dem_res", help='DEM resolution: default is 30 (m) for SRTM-X (use 10 m here for the WorldDEM). This is only used when converting TIF files to UTM coordinates.')
parser.add_argument('--roi', dest="roi", default = "", help='region of interest bounding box with S, N, W, E coordinates (include " ", e.g., --roi "[-24,-24.75,-67.25,-66.75]")')
parser.add_argument('--box', dest="box", default = "", help='bounding box with S, N, W, E coordinates (include " ", e.g., --box "[-24,-24.75,-67.25,-66.75]")')
parser.add_argument('--label', dest="label", default = "", help='text string indicating label of current area (e.g., --label "salta_lower_qdt")')
parser.add_argument('--proc_steps', type=int, default=0, dest="proc_steps", help='indicating level of processing (e.g., --proc_steps 0 (default) processes all band combinations that are below baseline threshold, --proc_steps 1 is only baseline generation, --proc_steps 2 will generate baselines and only one (first) ifg with full extent, --proc_steps 3 will generate ifgs using the first (oldest) as master with every other image and then only the next pairs)')
#parser.add_argument('--geoPosting', type=str, default="", dest="geoPosting", help='spatial resolution of geocoded files in lat/long (e.g., --geoPosting 0.0001.')
#parser.add_argument('--posting_m', type=str, default="", dest="posting_m", help='Posting in m.')
parser.add_argument('--geocode_reprocess', type=int, default=0, dest="geocode_reprocess", help='Reprocessing unwrapping with a new geocode bounding box. If geocode bounding box has changed and new geocoding is necessary, set this to 1 (e.g., --geocode_reprocess 1)')
parser.add_argument('--do_not_delete', type=int, default=0, dest="do_not_delete", help='Delete .raw*, rangeOffset.*, resampImage.*, simamp.* after succesfull interferogram formation. Default = 0 to save space. Set this to 1 to keep all files (will require lots of storage, e.g., --do_not_delete 1)')
parser.add_argument('--generate_utm_geotif', type=int, default=0, dest="generate_utm_geotif", help='Generate geotifs for each interferogram pair. Generates geotif and automatically projects to appropriate UTM ZoneX WGS84 coordinate system for the following: filt_topophase.unw.conncomp.geo, filt_topophase.unw.geo, topophase_cor.geo, resampOnlyImage.amp.geo. Default = 0 (no tif files are generated). Set this to 1 to generate geotifs (e.g., --generate_utm_geotif 1)')
parser.add_argument('--orbit_dir', type=str, default="/raid/InSAR/orbits/S1/aux_poeorb", dest="orbit_dir", help='Orbit directory for Sentinel-1A orbits (e.g., --orbit_dir /raid/InSAR/orbits/S1/precise)')
parser.add_argument('--aux_dir', type=str, default="/raid/InSAR/orbits/S1/aux_ins", dest="aux_dir", help='Instrument and calibration auxiliary directory for Sentinel-1A (e.g., --aux_dir /raid/InSAR/orbits/S1/aux_ins)')
parser.add_argument('--swath', type=str, default="[1,2,3]", dest="swath", help='Swath of Sentinel1 data (1 to 3, e.g., --swath "[1,2,3]" (default) or --swath "[2,3]" for only swaths 2 and 3)')
parser.add_argument('--generate_png', type=int, default=0, dest="generate_png", help='Generate PNGs with mdx for each interferogram pair. Generates merged views with unwrapped topophase, phase, correlation, amplitude. Default = 0 (no PNG files are generated). Set this to 1 to generate png (e.g., --generate_png 1)')
topophase_min = -25
topophase_max = 25
args = parser.parse_args()
sensor_name = 'Sentinel1'
indir = args.indir
PERP_BASELINE_THRESHOLD = args.baseline
print(args)
if args.dem == "":
dem_file = ""
else:
dem_file = args.dem
if args.generate_png == 0:
generate_png = 0
else:
generate_png = 1
if args.generate_utm_geotif == 0:
generate_utm_geotif = 0
else:
generate_utm_geotif = 1
if args.do_not_delete == 0:
do_not_delete = 0
else:
do_not_delete = args.do_not_delete
if args.box == "":
geocode2_textelement = ""
else:
geocode2_textelement = args.box
if args.roi == "":
roi_textelement = ""
else:
roi_textelement = args.roi
if args.proc_steps:
proc_steps = args.proc_steps
else:
proc_steps = 0
if args.geocode_reprocess:
geocode_reprocess = args.geocode_reprocess
else:
geocode_reprocess = 0
if args.label == "":
label_txt = ""
else:
label_txt = args.label
if args.orbit_dir == "":
orbit_dir = ""
else:
orbit_dir = args.orbit_dir
if args.aux_dir == "":
aux_dir = ""
else:
aux_dir = args.aux_dir
if args.dem_res == "":
dem_res = 30
else:
dem_res = args.dem_res
if args.swath != "":
swath = args.swath
else:
swath = "[1,2,3]"
print('Processing Sentinel1 data')
print('Indir: ' + indir)
print('Baseline: ' + str(PERP_BASELINE_THRESHOLD))
print('DEM: ' + dem_file)
print('ROI: ' + roi_textelement)
print('BBox: ' + geocode2_textelement)
print('Swaths: ' + swath)
print('Label: ' + label_txt)
print('Processing Steps: ' + str(proc_steps))
print('Geocode_reprocess: ' + str(geocode_reprocess))
print('Do_not_delete: ' + str(do_not_delete))
print('Generate Geotif: ' + str(generate_utm_geotif))
print 'Generate PNG: ' + str(generate_png)
print('Orbit Directory: ' + str(orbit_dir))
print('Auxiliary Directory: ' + str(aux_dir))
ifg_proc_ok = 0 #Flag for ifg processing
if os.path.exists(indir) == False:
print('Path ' + indir + ' does not exist. Exiting.')
exit()
log_output_dir = os.path.join(indir, 'log_output')
if os.path.exists(log_output_dir) == False:
os.mkdir(log_output_dir)
def generate_single_geotif_utm(dir2process, dir2process_merged, date_str, label_txt, baselinet_data, radarwavelength):
global conncomp_mean
global conncomp_2use_idx
global los_mean
global los_min
global los_max
global los2_mean
global los2_min
global los2_max
conncomp_out_fname = os.path.join(dir2process_merged, label_txt + '_conncomp_' + date_str + '.tif')
phsig_out_fname = os.path.join(dir2process_merged, label_txt + '_phsig_' + date_str + '.tif')
filttopohase_out_fname = os.path.join(dir2process_merged, label_txt + '_topophase_unw_' + date_str + '.tif')
filttopohase2stage_out_fname = os.path.join(dir2process_merged, label_txt + '_topophase_2stage_unw_' + date_str + '.tif')
amp_out_fname = os.path.join(dir2process_merged, label_txt + '_amp_' + date_str + '.tif')
topophasecor_out_fname = os.path.join(dir2process_merged, label_txt + '_topophase_cor_' + date_str + '.tif')
date_str = str(int(baselinet_data[i,0])) + '_' + str(int(baselinet_data[i,1]))
if os.path.exists('log') == False:
os.mkdir('log')
if len(glob.glob(os.path.join(dir2process_merged, label_txt + '_conncomp_*' + '.tif'))) > 0:
print 'Geotif exists for: ' + os.path.join(dir2process_merged, label_txt + '_conncomp_*' + '.tif')
else:
os.chdir(dir2process)
print 'Converting connected components to geotif: ' + os.path.join(dir2process_merged, 'filt_topophase.unw.conncomp.geo')
# cmd = ['isce2gis.py', 'vrt', '-i', 'merged/filt_topophase.unw.conncomp.geo']
# logfile_fname = dir2process + '/log/isce2gis_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
# logfile_error_fname = dir2process + '/log/isce2gis_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
# with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
# subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
# subprocess_p.wait()
cmd = ['gdal_translate', '-b','1', '-co', 'COMPRESS=LZW', '-co', 'predictor=2', 'merged/filt_topophase.unw.conncomp.geo.vrt', conncomp_out_fname]
logfile_fname = dir2process + '/log/gdal_translate_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = dir2process + '/log/gdal_translate_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
subprocess_p.wait()
cmd = ['gdalinfo', '-mm', '-hist','-stats', conncomp_out_fname]
gdalinfo_conncomp_logfile_fname = dir2process + '/log/gdalinfo' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
gdalinfo_conncomp_logfile_error_fname = dir2process + '/log/gdalinfo_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(gdalinfo_conncomp_logfile_fname, 'wb') as out, open(gdalinfo_conncomp_logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
subprocess_p.wait()
with open(gdalinfo_conncomp_logfile_fname) as searchfile:
for line in searchfile:
left,sep,right = line.partition('STATISTICS_MEAN=')
if sep: # True if 'STATISTICS_MEAN' in line
conncomp_mean.append(float(right))
print 'Mean of connected component: ' + str(float(right))
if float(right) > 0.1:
conncomp_2use_idx.append(i)
if len(glob.glob(os.path.join(dir2process_merged, label_txt + '_phsig_*' + '.tif'))) > 0:
print 'Geotif exists for: ' + os.path.join(dir2process_merged, label_txt + '_phsig_*' + '.tif')
else:
os.chdir(dir2process)
date_str = str(int(baselinet_data[i,0])) + '_' + str(int(baselinet_data[i,1]))
print 'Converting phase correlation to geotif: ' + os.path.join(dir2process_merged, 'phsig.cor.geo')
# cmd = ['isce2gis.py', 'vrt', '-i', 'merged/phsig.cor.geo']
# logfile_fname = dir2process + '/log/isce2gis_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
# logfile_error_fname = dir2process + '/log/isce2gis_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
# with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
# subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
# subprocess_p.wait()
cmd = ['gdal_translate', '-a_nodata', '0', '-b','1', '-co', 'COMPRESS=LZW', '-co', 'predictor=2', 'merged/phsig.cor.geo.vrt', phsig_out_fname]
logfile_fname = dir2process + '/log/gdal_translate_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = dir2process + '/log/gdal_translate_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
subprocess_p.wait()
cmd = ['gdalinfo', '-mm', '-hist','-stats', phsig_out_fname]
gdalinfo_conncomp_logfile_fname = dir2process + '/log/gdalinfo' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
gdalinfo_conncomp_logfile_error_fname = dir2process + '/log/gdalinfo_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(gdalinfo_conncomp_logfile_fname, 'wb') as out, open(gdalinfo_conncomp_logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
subprocess_p.wait()
if len(glob.glob(os.path.join(dir2process_merged, label_txt + '_topophase_cor_*' + '.tif'))) > 0:
print 'Geotif exists for: ' + os.path.join(dir2process_merged, label_txt + '_topophase_cor_*' + '.tif')
else:
os.chdir(dir2process)
date_str = str(int(baselinet_data[i,0])) + '_' + str(int(baselinet_data[i,1]))
print 'Converting topophase correlation to geotif: ' + os.path.join(dir2process_merged, 'topophase.cor.geo')
# cmd = ['isce2gis.py', 'vrt', '-i', 'merged/phsig.cor.geo']
# logfile_fname = dir2process + '/log/isce2gis_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
# logfile_error_fname = dir2process + '/log/isce2gis_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
# with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
# subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
# subprocess_p.wait()
cmd = ['gdal_translate', '-a_nodata', '0', '-b','1', '-co', 'COMPRESS=LZW', '-co', 'predictor=2', 'merged/topophase.cor.geo.vrt', topophasecor_out_fname]
logfile_fname = dir2process + '/log/gdal_translate_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = dir2process + '/log/gdal_translate_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
subprocess_p.wait()
cmd = ['gdalinfo', '-mm', '-hist','-stats', topophasecor_out_fname]
gdalinfo_conncomp_logfile_fname = dir2process + '/log/gdalinfo' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
gdalinfo_conncomp_logfile_error_fname = dir2process + '/log/gdalinfo_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(gdalinfo_conncomp_logfile_fname, 'wb') as out, open(gdalinfo_conncomp_logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
subprocess_p.wait()
if len(glob.glob(os.path.join(dir2process_merged, label_txt + '_topophase_2stage_unw_*' + '.tif'))) > 0:
print 'Geotif exists for: ' + os.path.join(dir2process_merged, label_txt + '_topophase_2stage_unw_*' + '.tif')
else:
os.chdir(dir2process)
date_str = str(int(baselinet_data[i,0])) + '_' + str(int(baselinet_data[i,1]))
print 'Converting filtered, unwrapped topophase (2 stage) to geotif: ' + os.path.join(dir2process_merged, 'filt_topophase_2stage.unw.geo')
# cmd = ['isce2gis.py', 'vrt', '-i', 'merged/filt_topophase_2stage.unw.geo']
# logfile_fname = dir2process + '/log/isce2gis_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
# logfile_error_fname = dir2process + '/log/isce2gis_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
# with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
# subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
# subprocess_p.wait()
cmd = ['gdal_translate', '-a_nodata', '0', '-b','1', '-co', 'COMPRESS=LZW', '-co', 'predictor=2', 'merged/filt_topophase_2stage.unw.geo.vrt', filttopohase2stage_out_fname]
logfile_fname = dir2process + '/log/gdal_translate_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = dir2process + '/log/gdal_translate_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
subprocess_p.wait()
cmd = ['gdalinfo', '-mm', '-hist','-stats', filttopohase2stage_out_fname]
gdalinfo_conncomp_logfile_fname = dir2process + '/log/gdalinfo' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
gdalinfo_conncomp_logfile_error_fname = dir2process + '/log/gdalinfo_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(gdalinfo_conncomp_logfile_fname, 'wb') as out, open(gdalinfo_conncomp_logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
subprocess_p.wait()
if len(glob.glob(os.path.join(dir2process_merged, label_txt + '_topophase_unw_*' + '.tif'))) > 0:
print 'Geotif exists for: ' + os.path.join(dir2process_merged, label_txt + '_topophase_unw_*' + '.tif')
else:
os.chdir(dir2process)
date_str = str(int(baselinet_data[i,0])) + '_' + str(int(baselinet_data[i,1]))
print 'Converting filtered, unwrapped topophase to geotif: ' + os.path.join(dir2process_merged, 'filt_topophase.unw.geo')
# cmd = ['isce2gis.py', 'vrt', '-i', 'merged/filt_topophase.unw.geo']
# logfile_fname = dir2process + '/log/isce2gis_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
# logfile_error_fname = dir2process + '/log/isce2gis_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
# with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
# subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
# subprocess_p.wait()
cmd = ['gdal_translate', '-a_nodata', '0', '-b','2', '-co', 'COMPRESS=LZW', '-co', 'predictor=2', 'merged/filt_topophase.unw.geo.vrt', filttopohase_out_fname]
logfile_fname = dir2process + '/log/gdal_translate_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = dir2process + '/log/gdal_translate_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
subprocess_p.wait()
cmd = ['gdalinfo', '-mm', '-hist','-stats', filttopohase_out_fname]
gdalinfo_conncomp_logfile_fname = dir2process + '/log/gdalinfo' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
gdalinfo_conncomp_logfile_error_fname = dir2process + '/log/gdalinfo_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(gdalinfo_conncomp_logfile_fname, 'wb') as out, open(gdalinfo_conncomp_logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
subprocess_p.wait()
if len(glob.glob(os.path.join(dir2process_merged, label_txt + '_amp_*' + '.tif'))) > 0:
print 'Geotif exists for: ' + os.path.join(dir2process_merged, label_txt + '_amp_*' + '.tif')
else:
os.chdir(dir2process)
date_str = str(int(baselinet_data[i,0])) + '_' + str(int(baselinet_data[i,1]))
print 'Converting amplitude to geotif: ' + os.path.join(dir2process_merged, 'filt_topophase.unw.geo')
# cmd = ['isce2gis.py', 'vrt', '-i', 'merged/filt_topophase.unw.geo']
# logfile_fname = dir2process + '/log/isce2gis_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
# logfile_error_fname = dir2process + '/log/isce2gis_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
# with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
# subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
# subprocess_p.wait()
cmd = ['gdal_translate', '-a_nodata', '0', '-b','1', '-co', 'COMPRESS=LZW', '-co', 'predictor=2', 'merged/filt_topophase.unw.geo.vrt', amp_out_fname]
logfile_fname = dir2process + '/log/gdal_translate_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = dir2process + '/log/gdal_translate_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
subprocess_p.wait()
cmd = ['gdalinfo', '-mm', '-hist','-stats', amp_out_fname]
gdalinfo_conncomp_logfile_fname = dir2process + '/log/gdalinfo' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
gdalinfo_conncomp_logfile_error_fname = dir2process + '/log/gdalinfo_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(gdalinfo_conncomp_logfile_fname, 'wb') as out, open(gdalinfo_conncomp_logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
subprocess_p.wait()
if len(glob.glob(os.path.join(dir2process_merged, label_txt + '_LOS_*' + '.tif'))) > 0:
print 'Geotif exists for: ' + os.path.join(dir2process_merged, label_txt + '_LOS_*' + '.tif')
else:
print 'Converting LOS to geotif: ' + os.path.join(dir2process_merged, 'los.rdr.geo')
# cmd = ['isce2gis.py', 'vrt', '-i', 'merged/los.rdr.geo']
# logfile_fname = dir2process + '/log/isce2gis_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
# logfile_error_fname = dir2process + '/log/isce2gis_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
# with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
# subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
# subprocess_p.wait()
los_out_fname = os.path.join(dir2process_merged, label_txt + '_los_' + date_str + '.tif')
cmd = ['gdal_translate', '-b','1', '-co', 'COMPRESS=LZW', '-co', 'predictor=2', 'merged/los.rdr.geo.vrt', los_out_fname]
logfile_fname = dir2process + '/log/gdal_translate_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = dir2process + '/log/gdal_translate_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
subprocess_p.wait()
cmd = ['gdalinfo', '-mm', '-hist','-stats', los_out_fname]
gdalinfo_los_logfile_fname = dir2process + '/log/gdalinfo' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
gdalinfo_los_logfile_error_fname = dir2process + '/log/gdalinfo_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(gdalinfo_los_logfile_fname, 'wb') as out, open(gdalinfo_los_logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
subprocess_p.wait()
with open(gdalinfo_los_logfile_fname) as searchfile:
for line in searchfile:
left,sep,right = line.partition('STATISTICS_MEAN=')
if sep: # True if 'STATISTICS_MEAN' in line
los_mean.append(float(right))
print 'Mean of los: ' + str(float(right)) + ', ',
with open(gdalinfo_los_logfile_fname) as searchfile:
for line in searchfile:
left,sep,right = line.partition('STATISTICS_MINIMUM=')
if sep: # True if 'STATISTICS_MEAN' in line
los_min.append(float(right))
print 'Min of los: ' + str(float(right)) + ', ',
with open(gdalinfo_los_logfile_fname) as searchfile:
for line in searchfile:
left,sep,right = line.partition('STATISTICS_MAXIMUM=')
if sep: # True if 'STATISTICS_MEAN' in line
los_max.append(float(right))
print 'Max of los: ' + str(float(right))
los2_out_fname = os.path.join(dir2process_merged, label_txt + '_los2_' + date_str + '.tif')
cmd = ['gdal_translate', '-b','2', '-co', 'COMPRESS=LZW', '-co', 'predictor=2', 'merged/los.rdr.geo.vrt', los2_out_fname]
logfile_fname = dir2process + '/log/gdal_translate_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = dir2process + '/log/gdal_translate_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
subprocess_p.wait()
cmd = ['gdalinfo', '-mm', '-hist','-stats', los2_out_fname]
gdalinfo_los_logfile_fname = dir2process + '/log/gdalinfo' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
gdalinfo_los_logfile_error_fname = dir2process + '/log/gdalinfo_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(gdalinfo_los_logfile_fname, 'wb') as out, open(gdalinfo_los_logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
subprocess_p.wait()
with open(gdalinfo_los_logfile_fname) as searchfile:
for line in searchfile:
left,sep,right = line.partition('STATISTICS_MEAN=')
if sep: # True if 'STATISTICS_MEAN' in line
los2_mean.append(float(right))
print 'Mean of los2: ' + str(float(right)) + ', ',
with open(gdalinfo_los_logfile_fname) as searchfile:
for line in searchfile:
left,sep,right = line.partition('STATISTICS_MINIMUM=')
if sep: # True if 'STATISTICS_MEAN' in line
los2_min.append(float(right))
print 'Min of los2: ' + str(float(right)) + ', ',
with open(gdalinfo_los_logfile_fname) as searchfile:
for line in searchfile:
left,sep,right = line.partition('STATISTICS_MAXIMUM=')
if sep: # True if 'STATISTICS_MEAN' in line
los2_max.append(float(right))
print 'Max of los2: ' + str(float(right))
#radarwavelength = 0.05546576
deltat_y = baselinet_data[i,2]
t = gdal.Open(filttopohase2stage_out_fname)
gt = t.GetGeoTransform()
cs = t.GetProjection()
cs_sr = osr.SpatialReference()
cs_sr.ImportFromWkt(cs)
del t
topophase = gdalnumeric.LoadFile(filttopohase2stage_out_fname).astype(float)
cols = topophase.shape[1]
rows = topophase.shape[0]
topophase_m_yr = (topophase * (radarwavelength/4*np.pi)) / float(deltat_y)
filttopohase_m_yr_out_fname = os.path.join(dir2process_merged, label_txt + '_LOS_deformation_m_yr_' + date_str + '.tif')
driver = gdal.GetDriverByName('GTiff')
driver.Register()
outRaster = driver.Create(filttopohase_m_yr_out_fname, cols, rows, 1, gdal.GDT_Float32)
outRaster.SetGeoTransform(gt)
outRaster.SetProjection(cs)
outband = outRaster.GetRasterBand(1)
outband.SetMetadataItem('Band', 'LOS Deformation in m/yr')
outband.SetNoDataValue(0)
outband.WriteArray(topophase_m_yr,0,0)
outband.FlushCache()
del driver, outRaster, topophase_m_yr, topophase
#Get Zone information from vrt file:
if (generate_utm_geotif == 1) or (len(glob.glob(os.path.join(dir2process_merged, label_txt + '_phsig_' + date_str + '_UTM*_WGS84.tif'))) == 0 or \
len(glob.glob(os.path.join(dir2process_merged, label_txt + '_conncomp*' + date_str + '_UTM*_WGS84.tif'))) == 0 or \
len(glob.glob(os.path.join(dir2process_merged, label_txt + '_topophase_unw_' + date_str + '_UTM*_WGS84.tif'))) == 0):
if len(glob.glob(os.path.join(dir2process_merged, label_txt + '_phsig_' + date_str + '_UTM*_WGS84.tif'))) == 0:
cmd = ['isce2gis.py', 'vrt', '-i', 'merged/phsig.cor.geo']
logfile_fname = dir2process + '/log/isce2gis_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = dir2process + '/log/isce2gis_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
subprocess_p.wait()
tree = ET.parse(os.path.join(dir2process_merged, 'phsig.cor.geo.vrt'))
geotransform = tree.find('GeoTransform').text
Px = float(geotransform.split(',')[0])
Py = float(geotransform.split(',')[3])
Zone = math.floor((Px + 180)/6) + 1
if Px >= 56.0 and Px <= 64.0 and Zone > 3.0 and Zone < 12.0:
Zone = 32
Zone = str(int(Zone))
if Py > 0:
prj = '+proj=utm +zone=' + Zone + ' +ellps=WGS84 +datum=WGS84 +units=m +no_defs'
if label_txt <> "":
phsig_out_fname_utm = label_txt + '_phsig_'+ date_str + '_UTM' + Zone + 'N_WGS84.tif'
conncomp_out_fname_utm = label_txt + '_conncomp_' + date_str + '_UTM_' + Zone + 'N_WGS84.tif'
amp_out_fname_utm = label_txt + '_amp_' + date_str + '_UTM_' + Zone + 'N_WGS84.tif'
topophasecor_out_fname_utm = label_txt + '_topophase_cor_' + date_str + '_UTM_' + Zone + 'N_WGS84.tif'
topophase_out_fname_utm = label_txt + '_topophase_unw_' + date_str + '_UTM_' + Zone + 'N_WGS84.tif'
topophase2stage_out_fname_utm = label_txt + '_topophase_2stage_unw_' + date_str + '_UTM_' + Zone + 'N_WGS84.tif'
topophase_myr_out_fname_utm = label_txt + '_topophase_m_yr_' + date_str + '_UTM_' + Zone + 'N_WGS84.tif'
else:
phsig_out_fname_utm = 'phsig_'+ date_str + '_UTM' + Zone + 'N_WGS84.tif'
conncomp_out_fname_utm = 'conncomp_' + date_str + '_UTM_' + Zone + 'N_WGS84.tif'
topophasecor_out_fname_utm = 'topophase_cor_' + date_str + '_UTM_' + Zone + 'N_WGS84.tif'
topophase_out_fname_utm = 'topophase_' + date_str + '_UTM_' + Zone + 'N_WGS84.tif'
amp_out_fname_utm = 'amp_' + date_str + '_UTM_' + Zone + 'N_WGS84.tif'
topophase2stage_out_fname_utm = 'topophase_2stage_unw_' + date_str + '_UTM_' + Zone + 'N_WGS84.tif'
topophase_myr_out_fname_utm = 'topophase_m_yr_' + date_str + '_UTM_' + Zone + 'N_WGS84.tif'
if Py < 0:
prj = '+proj=utm +zone=' + Zone + ' +south +ellps=WGS84 +datum=WGS84 +units=m +no_defs'
if label_txt <> "":
phsig_out_fname_utm = label_txt + '_phsig_'+ date_str + '_UTM' + Zone + 'S_WGS84.tif'
conncomp_out_fname_utm = label_txt + '_conncomp_' + date_str + '_UTM_' + Zone + 'S_WGS84.tif'
topophasecor_out_fname_utm = label_txt + '_topophase_cor_' + date_str + '_UTM_' + Zone + 'S_WGS84.tif'
topophase_out_fname_utm = label_txt + '_topophase_unw_' + date_str + '_UTM_' + Zone + 'S_WGS84.tif'
amp_out_fname_utm = label_txt + '_amp_' + date_str + '_UTM_' + Zone + 'S_WGS84.tif'
topophase2stage_out_fname_utm = label_txt + '_topophase_2stage_unw_' + date_str + '_UTM_' + Zone + 'S_WGS84.tif'
topophase_myr_out_fname_utm = label_txt + '_topophase_m_yr_' + date_str + '_UTM_' + Zone + 'S_WGS84.tif'
else:
phsig_out_fname_utm = 'phsig_'+ date_str + '_UTM' + Zone + 'S_WGS84.tif'
conncomp_out_fname_utm = 'conncomp_' + date_str + '_UTM_' + Zone + 'S_WGS84.tif'
topophasecor_out_fname_utm = 'topophase_cor_' + date_str + '_UTM_' + Zone + 'S_WGS84.tif'
topophase_out_fname_utm = 'topophase_unw_' + date_str + '_UTM_' + Zone + 'S_WGS84.tif'
amp_out_fname_utm = 'amp_' + date_str + '_UTM_' + Zone + 'S_WGS84.tif'
topophase_myr_out_fname_utm = 'topophase_m_yr_' + date_str + '_UTM_' + Zone + 'S_WGS84.tif'
topophase2stage_out_fname_utm = label_txt + '_topophase_2stage_unw_' + date_str + '_UTM_' + Zone + 'S_WGS84.tif'
if os.path.exists(os.path.join(dir2process_merged,topophase_myr_out_fname_utm)) == False:
cmd = ['gdalwarp', '-srcnodata', '0', '-dstnodata', '0', '-multi', '-tap', '-tr', str(dem_res), str(dem_res), '-t_srs', prj, '-r', 'bilinear', '-co', 'COMPRESS=LZW', '-co', 'predictor=2', filttopohase_m_yr_out_fname, os.path.join(dir2process_merged,topophase_myr_out_fname_utm)]
logfile_fname = dir2process + '/log/gdalwarp_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = dir2process + '/log/gdalwarp_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
subprocess_p.wait()
cmd = ['gdalinfo', '-mm', '-hist', '-stats', os.path.join(dir2process_merged,topophase_myr_out_fname_utm)]
logfile_fname = dir2process + '/log/gdalinfo_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = dir2process + '/log/gdalinfo_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
subprocess_p.wait()
if os.path.exists(os.path.join(dir2process_merged,topophasecor_out_fname_utm)) == False:
cmd = ['gdalwarp', '-srcnodata', '0', '-dstnodata', '0', '-multi', '-tap', '-tr', str(dem_res), str(dem_res), '-t_srs', prj, '-r', 'bilinear', '-co', 'COMPRESS=LZW', '-co', 'predictor=2', topophasecor_out_fname, os.path.join(dir2process_merged,topophasecor_out_fname_utm)]
logfile_fname = dir2process + '/log/gdalwarp_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = dir2process + '/log/gdalwarp_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
subprocess_p.wait()
cmd = ['gdalinfo', '-mm', '-hist', '-stats', os.path.join(dir2process_merged,topophasecor_out_fname_utm)]
logfile_fname = dir2process + '/log/gdalinfo_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = dir2process + '/log/gdalinfo_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
subprocess_p.wait()
if os.path.exists(os.path.join(dir2process_merged,topophase_out_fname_utm)) == False:
cmd = ['gdalwarp', '-srcnodata', '0', '-dstnodata', '0', '-multi', '-tap', '-tr', str(dem_res), str(dem_res), '-t_srs', prj, '-r', 'bilinear', '-co', 'COMPRESS=LZW', '-co', 'predictor=2', filttopohase_out_fname, os.path.join(dir2process_merged,topophase_out_fname_utm)]
logfile_fname = dir2process + '/log/gdalwarp_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = dir2process + '/log/gdalwarp_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
subprocess_p.wait()
cmd = ['gdalinfo', '-mm', '-hist', '-stats', os.path.join(dir2process_merged,topophase_out_fname_utm)]
logfile_fname = dir2process + '/log/gdalinfo_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = dir2process + '/log/gdalinfo_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
subprocess_p.wait()
if os.path.exists(os.path.join(dir2process_merged,topophase2stage_out_fname_utm)) == False:
cmd = ['gdalwarp', '-srcnodata', '0', '-dstnodata', '0', '-multi', '-tap', '-tr', str(dem_res), str(dem_res), '-t_srs', prj, '-r', 'bilinear', '-co', 'COMPRESS=LZW', '-co', 'predictor=2', filttopohase2stage_out_fname, os.path.join(dir2process_merged,topophase2stage_out_fname_utm)]
logfile_fname = dir2process + '/log/gdalwarp_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = dir2process + '/log/gdalwarp_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
subprocess_p.wait()
cmd = ['gdalinfo', '-mm', '-hist', '-stats', os.path.join(dir2process_merged,topophase2stage_out_fname_utm)]
logfile_fname = dir2process + '/log/gdalinfo_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = dir2process + '/log/gdalinfo_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
subprocess_p.wait()
if os.path.exists(os.path.join(dir2process_merged,amp_out_fname_utm)) == False:
cmd = ['gdalwarp', '-srcnodata', '0', '-dstnodata', '0', '-multi', '-tap', '-tr', str(dem_res), str(dem_res), '-t_srs', prj, '-r', 'bilinear', '-co', 'COMPRESS=LZW', '-co', 'predictor=2', amp_out_fname, os.path.join(dir2process_merged,amp_out_fname_utm)]
logfile_fname = dir2process + '/log/gdalwarp_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = dir2process + '/log/gdalwarp_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
subprocess_p.wait()
cmd = ['gdalinfo', '-mm', '-hist', '-stats', os.path.join(dir2process_merged,amp_out_fname_utm)]
logfile_fname = dir2process + '/log/gdalinfo_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = dir2process + '/log/gdalinfo_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
subprocess_p.wait()
if os.path.exists(os.path.join(dir2process_merged,phsig_out_fname_utm)) == False:
cmd = ['gdalwarp', '-srcnodata', '0', '-dstnodata', '0', '-multi', '-tap', '-tr', str(dem_res), str(dem_res), '-t_srs', prj, '-r', 'bilinear', '-co', 'COMPRESS=LZW', '-co', 'predictor=2', phsig_out_fname, os.path.join(dir2process_merged,phsig_out_fname_utm)]
logfile_fname = dir2process + '/log/gdalwarp_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = dir2process + '/log/gdalwarp_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
subprocess_p.wait()
cmd = ['gdalinfo', '-mm', '-hist', '-stats', os.path.join(dir2process_merged,phsig_out_fname_utm)]
logfile_fname = dir2process + '/log/gdalinfo_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = dir2process + '/log/gdalinfo_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
subprocess_p.wait()
if os.path.exists(os.path.join(dir2process_merged,conncomp_out_fname_utm)) == False:
cmd = ['gdalwarp', '-tap', '-tr', str(dem_res), str(dem_res), '-t_srs', prj, '-r', 'near', '-co', 'COMPRESS=LZW', '-co', 'predictor=2', conncomp_out_fname, os.path.join(dir2process_merged,conncomp_out_fname_utm)]
logfile_fname = dir2process + '/log/gdalwarp_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = dir2process + '/log/gdalwarp_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
subprocess_p.wait()
cmd = ['gdalinfo', '-mm', '-hist', '-stats', os.path.join(dir2process_merged,conncomp_out_fname_utm)]
logfile_fname = dir2process + '/log/gdalinfo_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = dir2process + '/log/gdalinfo_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
subprocess_p.wait()
def generate_single_png(topophase_min, topophase_max, indir, dir2process_merged, date2process, dem_flag):
print 'Generating PNGs from processed amplitude, coherence, unwrapped phase: ' + date2process
cmd1a = ['mdx.py', '-P', 'merged/filt_topophase.unw.geo', '-min', str(topophase_min), '-max', str(topophase_max)]
cmd1b = ['convert', '-despeckle', '-resize', '75%', 'out.ppm', 'filt_topophase_unw_' + date2process + '.png']
cmd1c = ['rm', 'out.ppm']
cmd1d = ['mogrify', '-format', "png", '-font', 'Liberation-Sans', '-fill', 'white', '-undercolor', '#00000080', '-pointsize', '128', '-gravity', 'NorthEast', '-annotate', '+10+10', '%t', 'filt_topophase_unw_' + date2process + '.png']
logfile_fname = 'log/png_filt_topophase_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = 'log/png_filt_topophase_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd1a, stdout=out, stderr=err)
subprocess_p.wait()
subprocess_p = subprocess.Popen(cmd1b, stdout=out, stderr=err)
subprocess_p.wait()
subprocess_p = subprocess.Popen(cmd1c, stdout=out, stderr=err)
subprocess_p.wait()
subprocess_p = subprocess.Popen(cmd1d, stdout=out, stderr=err)
subprocess_p.wait()
cmd2a = ['mdx.py', '-P', 'merged/filt_topophase.unw.conncomp.geo']
cmd2b = ['convert', '-despeckle', '-resize', '75%', 'out.ppm', 'filt_topophase_unw_conncomp_' + date2process + '.png']
cmd2c = ['rm', 'out.ppm']
cmd2d = ['mogrify', '-format', "png", '-font', 'Liberation-Sans', '-fill', 'white', '-undercolor', '#00000080', '-pointsize', '128', '-gravity', 'NorthEast', '-annotate', '+10+10', '%t', 'filt_topophase_unw_conncomp_' + date2process + '.png']
logfile_fname = 'log/png_filt_topophase_conncomp_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = 'log/png_filt_topophase_conncomp_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd2a, stdout=out, stderr=err)
subprocess_p.wait()
subprocess_p = subprocess.Popen(cmd2b, stdout=out, stderr=err)
subprocess_p.wait()
subprocess_p = subprocess.Popen(cmd2c, stdout=out, stderr=err)
subprocess_p.wait()
subprocess_p = subprocess.Popen(cmd2d, stdout=out, stderr=err)
subprocess_p.wait()
# cmd = ['/bin/sed', '-i', "s/<value>bil/<value>unw/g", 'merged/filt_topophase_2stage.unw.geo.xml']
# logfile_fname = 'sed_2stage_unw_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
# logfile_error_fname = 'sed_2stage_unw_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
# with open(os.path.join(log_output_dir, logfile_fname), 'wb') as out, open(os.path.join(log_output_dir,logfile_error_fname), 'wb') as err:
# subprocess_p = subprocess.Popen(cmd, stdout=out, stderr=err)
# subprocess_p.wait()
#
# cmd3a = ['mdx.py', '-P', 'merged/filt_topophase_2stage.unw.geo']
# cmd3b = ['convert', '-despeckle', '-resize', '75%', 'out.ppm', 'filt_topophase_2stage_unw_' + date2process + '.png']
# cmd3c = ['rm', 'out.ppm']
# cmd3d = ['mogrify', '-format', "png", '-font', 'Liberation-Sans', '-fill', 'white', '-undercolor', '#00000080', '-pointsize', '128', '-gravity', 'NorthEast', '-annotate', '+10+10', '%t', 'filt_topophase_unw_2stage_' + date2process + '.png']
# logfile_fname = 'log/png_filt_topophase_2stage_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
# logfile_error_fname = 'log/png_filt_topophase_2stage_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
# with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
# subprocess_p = subprocess.Popen(cmd3a, stdout=out, stderr=err)
# subprocess_p.wait()
# subprocess_p = subprocess.Popen(cmd3b, stdout=out, stderr=err)
# subprocess_p.wait()
# subprocess_p = subprocess.Popen(cmd3c, stdout=out, stderr=err)
# subprocess_p.wait()
# subprocess_p = subprocess.Popen(cmd3d, stdout=out, stderr=err)
# subprocess_p.wait()
cmd4a = ['mdx.py', '-P', 'merged/phsig.cor.geo']
cmd4b = ['convert', '-despeckle', '-resize', '75%', 'out.ppm', 'phsig_cor_' + date2process + '.png']
cmd4c = ['rm', 'out.ppm']
cmd4d = ['mogrify', '-format', "png", '-font', 'Liberation-Sans', '-fill', 'white', '-undercolor', '#00000080', '-pointsize', '128', '-gravity', 'NorthEast', '-annotate', '+10+10', '%t', 'phsig_cor_' + date2process + '.png']
logfile_fname = 'log/png_phsig_cor_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = 'log/png_phsig_cor_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd4a, stdout=out, stderr=err)
subprocess_p.wait()
subprocess_p = subprocess.Popen(cmd4b, stdout=out, stderr=err)
subprocess_p.wait()
subprocess_p = subprocess.Popen(cmd4c, stdout=out, stderr=err)
subprocess_p.wait()
subprocess_p = subprocess.Popen(cmd4d, stdout=out, stderr=err)
subprocess_p.wait()
#use first band for amplitude and second band for topophase
cmd5a = ['mdx.py', '-P', 'merged/topophase.cor.geo']
cmd5b = ['convert', '-despeckle', '-resize', '75%', 'out.ppm', 'topophase_cor_' + date2process + '.png']
cmd5c = ['rm', 'out.ppm']
cmd5d = ['mogrify', '-format', "png", '-font', 'Liberation-Sans', '-fill', 'white', '-undercolor', '#00000080', '-pointsize', '128', '-gravity', 'NorthEast', '-annotate', '+10+10', '%t', 'topophase_cor_' + date2process + '.png']
logfile_fname = 'log/png_topophase_amp_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = 'log/png_topophase_amp_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd5a, stdout=out, stderr=err)
subprocess_p.wait()
subprocess_p = subprocess.Popen(cmd5b, stdout=out, stderr=err)
subprocess_p.wait()
subprocess_p = subprocess.Popen(cmd5c, stdout=out, stderr=err)
subprocess_p.wait()
subprocess_p = subprocess.Popen(cmd5d, stdout=out, stderr=err)
subprocess_p.wait()
if dem_flag == True:
cmd6a = ['mdx.py', '-P', 'merged/dem.crop']
cmd6b = ['convert', '-despeckle', '-resize', '75%', 'out.ppm', 'dem_' + date2process + '.png']
cmd6c = ['rm', 'out.ppm']
cmd6d = ['mogrify', '-format', "png", '-font', 'Liberation-Sans', '-fill', 'white', '-undercolor', '#00000080', '-pointsize', '128', '-gravity', 'NorthEast', '-annotate', '+10+10', '%t', 'dem_' + date2process + '.png']
logfile_fname = 'log/png_dem_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = 'log/png_dem_amp_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd6a, stdout=out, stderr=err)
subprocess_p.wait()
subprocess_p = subprocess.Popen(cmd6b, stdout=out, stderr=err)
subprocess_p.wait()
subprocess_p = subprocess.Popen(cmd6c, stdout=out, stderr=err)
subprocess_p.wait()
subprocess_p = subprocess.Popen(cmd6d, stdout=out, stderr=err)
subprocess_p.wait()
append_list = glob.glob('*_' + date2process + '.png')
append_list.sort()
#print append_list
png_file_basename = []
for png_file in append_list:
png_file_basename.append(os.path.basename(png_file))
if (len(png_file_basename) == 3):
cmd6a = ['convert', png_file_basename[0], png_file_basename[1], png_file_basename[2], '+append', 'merged_views_' + date2process + '.png']
#cmd6b = ['convert', 'merged_views_' + date2process + '.png', 'merged_views_' + date2process + '.pdf']
cmd6c = ['mogrify', '-format', "png", '-font', 'Liberation-Sans', '-fill', 'white', '-undercolor', '#00000080', '-pointsize', '256', '-gravity', 'SouthEast', '-annotate', '+10+10', date2process, 'merged_views_' + date2process + '.png']
logfile_fname = 'log/png_append_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = 'log/png_append_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd6a, stdout=out, stderr=err)
subprocess_p.wait()
# subprocess_p = subprocess.Popen(cmd6b, stdout=out, stderr=err)
# subprocess_p.wait()
subprocess_p = subprocess.Popen(cmd6c, stdout=out, stderr=err)
subprocess_p.wait()
cmd7a = ['rm', '-fr', png_file_basename[0], png_file_basename[1], png_file_basename[2]]
logfile_fname = 'log/png_rm_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = 'log/png_rm_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd7a, stdout=out, stderr=err)
subprocess_p.wait()
elif (len(png_file_basename) > 4):
cmd6a = ['convert', png_file_basename[0], png_file_basename[1], png_file_basename[2], png_file_basename[3], png_file_basename[4], '+append', 'merged_views_' + date2process + '.png']
#cmd6b = ['convert', 'merged_views_' + date2process + '.png', 'merged_views_' + date2process + '.pdf']
cmd6c = ['mogrify', '-format', "png", '-font', 'Liberation-Sans', '-fill', 'white', '-undercolor', '#00000080', '-pointsize', '256', '-gravity', 'SouthEast', '-annotate', '+10+10', date2process, 'merged_views_' + date2process + '.png']
logfile_fname = 'log/png_append_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = 'log/png_append_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd6a, stdout=out, stderr=err)
subprocess_p.wait()
# subprocess_p = subprocess.Popen(cmd6b, stdout=out, stderr=err)
# subprocess_p.wait()
subprocess_p = subprocess.Popen(cmd6c, stdout=out, stderr=err)
subprocess_p.wait()
cmd7a = ['rm', '-fr', png_file_basename[0], png_file_basename[1], png_file_basename[2], png_file_basename[3], png_file_basename[4]]
logfile_fname = 'log/png_rm_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = 'log/png_rm_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd7a, stdout=out, stderr=err)
subprocess_p.wait()
elif (len(png_file_basename) == 4):
cmd6a = ['convert', png_file_basename[0], png_file_basename[1], png_file_basename[2], png_file_basename[3], '+append', 'merged_views_' + date2process + '.png']
#cmd6b = ['convert', 'merged_views_' + date2process + '.png', 'merged_views_' + date2process + '.pdf']
cmd6c = ['mogrify', '-format', "png", '-font', 'Liberation-Sans', '-fill', 'white', '-undercolor','#00000080', '-pointsize', '256', '-gravity', 'SouthEast', '-annotate', '+10+10', date2process, 'merged_views_' + date2process + '.png']
logfile_fname = 'log/png_append_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = 'log/png_append_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd6a, stdout=out, stderr=err)
subprocess_p.wait()
# subprocess_p = subprocess.Popen(cmd6b, stdout=out, stderr=err)
# subprocess_p.wait()
subprocess_p = subprocess.Popen(cmd6c, stdout=out, stderr=err)
subprocess_p.wait()
cmd7a = ['rm', '-fr', png_file_basename[0], png_file_basename[1], png_file_basename[2], png_file_basename[3]]
logfile_fname = 'log/png_rm_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '.txt'
logfile_error_fname = 'log/png_rm_' + datetime.datetime.now().strftime('%Y%b%d_%H%M%S') + '_err.txt'
with open(logfile_fname, 'wb') as out, open(logfile_error_fname, 'wb') as err:
subprocess_p = subprocess.Popen(cmd7a, stdout=out, stderr=err)
subprocess_p.wait()
def build_xmls(idx, master_slave_string, indir, swath, orbit_dir, aux_dir, Sentinel1_full_zipname, Sentinel1_full_dirname, date, ImgSceneCenterDate, ImgSceneCenterDateTime):
xmlfile_master = str(date) + '.xml'
xmldirfile_master = os.path.join(indir, xmlfile_master)
#output_directory = os.path.join(dirname_full_swath, master_slave_string)
try:
idx2 = idx[0]
except IndexError:
idx2 = idx
idx = idx2
idx2 = None
Sentinel1_full_zipname_idx = Sentinel1_full_zipname[idx]
#out_swath_dir = 'output_swath' + str(swath)
output_directory = os.path.join(Sentinel1_full_dirname[idx], master_slave_string)
# if os.path.exists(output_directory) == False:
# os.mkdir(output_directory)
#output_directory = os.path.join(output_directory, out_swath_dir)
#if os.path.exists(output_directory) == False:
# os.mkdir(output_directory)
#verify if file exists:
#if os.path.exists(xmldirfile_master) == False:
f = open(xmldirfile_master, 'w+')
f.write('<?xml version="1.0" encoding="UTF-8"?>\n')
f.write('<component name="master">\n')
f.write(' <property name="safe">\n')
f.write(' <value>"%s"</value>\n' % Sentinel1_full_zipname_idx)
f.write(' </property>\n')
# f.write(' <property name="swath number">\n')
# f.write(' <value>%s</value>\n' % swath)
# f.write(' </property>\n')
f.write(' <property name="output directory">\n')
f.write(' <value>"%s"</value>\n' % output_directory)
f.write(' </property>\n')
f.write(' <property name="orbit directory">\n')
f.write(' <value>"%s"</value>\n' % orbit_dir)
f.write(' </property>\n')
f.write(' <property name="auxiliary data directory">\n')
f.write(' <value>"%s"</value>\n' % aux_dir)
f.write(' </property>\n')
f.write('</component>\n')
return output_directory, xmldirfile_master, Sentinel1_full_dirname[idx]
ImgSceneCenterDateTime = []
ImgSceneCenterDate = []
ImgSceneCenterTime = []
Sentinel1_dirname = []
Sentinel1_full_dirname = []
tfname_full_zip_list = []
Sentinel1_zipname = []
Sentinel1_full_zipname = []
Sentinel1_zipname_merged = []
Sentinel1_full_zipname_merged = []
counter = 0
#get list of .zip or .tar.gz files
if len(glob.glob(os.path.join(indir,"S1?_IW_SLC__*.zip"))) > 0:
tar_filelist = sorted(glob.glob(os.path.join(indir,"S1?_IW_SLC__*.zip")))
# if len(tar_filelist) == 0 and len(glob.glob(os.path.join(indir,"SO_*.tar.gz"))) > 0:
# tar_filelist = sorted(glob.glob(os.path.join(indir,"SO_*.tar.gz")))
for file in tar_filelist:
fname = os.path.basename(file)
fname_out = fname.split('.')[0]
# print('\nProcessing: ' + fname),
# if os.path.exists(fname_out + '.SAFE') == False:
# print('... unzipping '),
# os.chdir(os.path.dirname(file))
# cmd = ['unzip', '-u', fname]
# wait = subprocess.Popen(cmd)
# wait.wait()
# else:
# print('... exists'),
#now extract date and timing
tfname_zip = os.path.basename(os.path.join(os.path.dirname(file), fname_out + '.zip'))
tfname_full_zip = os.path.join(os.path.dirname(file), fname_out + '.zip')
tfname = os.path.basename(os.path.join(os.path.dirname(file), fname_out + '.SAFE'))
tfname_full = os.path.join(os.path.dirname(file), fname_out + '.SAFE')
fname_date = tfname[17:25]
fname_time = tfname[26:32]
tfname_full_zip_list.append(tfname_full_zip)
# if fname_date in ImgSceneCenterDate:
# ImgSceneCenterDateTime2merge.append(ImgSceneCenterDateTime[-1])
# tfname_zip_list2merge.append('"' + tfname_full_zip_list[-1]'", "' + tfname_full_zip + '"')
if fname_date not in ImgSceneCenterDate:
ImgSceneCenterDateTime.append(datetime.datetime(int(fname_date[0:4]), int(fname_date[4:6]), int(fname_date[6:8]), int(fname_time[0:2]), int(fname_time[2:4]), int(fname_time[4:6])))
ImgSceneCenterDate.append(fname_date)
ImgSceneCenterTime.append(fname_time)
Sentinel1_dirname.append(tfname)
Sentinel1_full_dirname.append(tfname_full)
Sentinel1_zipname.append(tfname_zip)
Sentinel1_full_zipname.append(tfname_full_zip)
counter = counter + 1
elif fname_date in ImgSceneCenterDate:
#file should be combined with existing SAFE/zip file. Because files are sorted, it is the previous file
Sentinel1_zipname_merged.append([Sentinel1_zipname[-1], tfname_zip])
Sentinel1_zipname.pop()
Sentinel1_zipname.append(Sentinel1_zipname_merged[-1])
Sentinel1_full_zipname_merged.append([Sentinel1_full_zipname[-1], tfname_zip])
Sentinel1_full_zipname.pop()
Sentinel1_full_zipname.append(Sentinel1_full_zipname_merged[-1])
elif len(glob.glob(os.path.join(indir,"S1?_IW_SLC__*.SAFE"))) > 0:
SAFE_filelist = sorted(glob.glob(os.path.join(indir,"S1?_IW_SLC__*.SAFE")))
for file in SAFE_filelist:
fname = os.path.basename(file)
print('\nProcessing: ' + fname),
#now extract date and timing
tfname = fname
tfname_full = file
fname_date = tfname[17:25]
fname_time = tfname[26:32]
ImgSceneCenterDateTime.append(datetime.datetime(int(fname_date[0:4]), int(fname_date[4:6]), int(fname_date[6:8]), int(fname_time[0:2]), int(fname_time[2:4]), int(fname_time[4:6])))
ImgSceneCenterDate.append(fname_date)
ImgSceneCenterTime.append(fname_time)
Sentinel1_dirname.append(tfname)
Sentinel1_full_dirname.append(tfname_full)
counter = counter + 1
indir_path = indir
print('\nProcessed ' + str(counter) + ' files.')
#Analyzing files and generating xml file for calculating pairs
baseline_results = []
baseline_results_lt_threshold = []
baseline_results_lt_threshold_conncomp_los = []
ImgSceneCenterDate_int = np.array(map(int, ImgSceneCenterDate))
ImgSceneCenterDate_unique = np.unique(ImgSceneCenterDate_int)
for date in ImgSceneCenterDate_unique:
idx = np.where(ImgSceneCenterDate_int == date)
idx = idx[0]
#now iterate through that index and generate xml files
#same indices indicate same days
if len(idx) > 1:
idx = idx[0]
[output_master_directory, xmldirfile_master, Sentinel1A_full_master_dirname] = build_xmls(idx, 'master', indir, swath, orbit_dir, aux_dir, Sentinel1_full_zipname, Sentinel1_full_dirname, date, ImgSceneCenterDate, ImgSceneCenterDateTime)
try:
idx2 = idx[0]
except IndexError:
idx2 = idx
idx = idx2
idx2 = None
#generate pairs, starting with first data
#only use pairs that have same number of images (i.e. are on the same row/path)
if date == ImgSceneCenterDate_unique[0]:
#first date, create slave list
date_list = np.copy(ImgSceneCenterDate_unique)
idx2remove = np.where(date_list == date)
date_list = np.delete(date_list, idx2remove)
date_list_save = np.copy(date_list)
else:
#for all other times when date_list already exists
date_list = np.copy(date_list_save)
idx2remove = np.where(date_list == date)
date_list = np.delete(date_list, idx2remove)
date_list_save = np.copy(date_list)
for cdate in date_list:
dirname = str(date) + '_' + str(cdate)
print '\nProcessing ' + str(date) + ' - ', str(cdate)
dirname_full = os.path.join(indir, dirname)
if os.path.exists(dirname_full) == False:
os.mkdir(dirname_full)
dirname_full_swath = os.path.join(dirname_full)
# dirname_full_swath = os.path.join(dirname_full, 'swath'+str(swath))
# if os.path.exists(dirname_full_swath) == False:
# os.mkdir(dirname_full_swath)
cidx = np.where(ImgSceneCenterDate_int == cdate)
cidx = cidx[0]
if cidx.size > 1:
cidx = cidx[0]
try:
cidx2 = cidx[0]
except IndexError:
cidx2 = cidx
cidx = cidx2
cidx2 = None
#make sure that only the same orbits are combined
#now iterate through that index and generate xml files
#same indices indicate same days
[output_slave_directory, xmldirfile_slave, Sentinel1A_full_slave_dirname] = build_xmls(cidx, 'slave', indir, swath, orbit_dir, aux_dir, Sentinel1_full_zipname, Sentinel1_full_dirname, cdate, ImgSceneCenterDate, ImgSceneCenterDateTime)
#now generate controlling xml file
topsApp_fname = dirname + '.xml'
topsApp_fname_full = os.path.join(dirname_full_swath, topsApp_fname)
f = open(topsApp_fname_full, 'w+')
f.write('<?xml version="1.0" encoding="UTF-8"?>\n')
f.write('<topsApp>\n')
f.write(' <component name="topsinsar">\n')
f.write(' <property name="Sensor Name">\n')
f.write(' <value>SENTINEL1</value>\n')
f.write(' </property>\n')
f.write(' <component name="master">\n')
f.write(' <catalog>%s</catalog>\n' % xmldirfile_master)
f.write(' </component>\n')
f.write(' <component name="slave">\n')
f.write(' <catalog>%s</catalog>\n' % xmldirfile_slave)
f.write(' </component>\n')
#GEO_POSTING Output posting for geocoded images in degrees (latitude = longitude)
#if geoPosting:
# f.write(' <property name="geoPosting"><value>%f</value></property>\n' % geoPosting)
#f.write(' <property name="posting"><value>%d</value></property>\n' % posting_m)
if roi_textelement:
f.write(' <property name="swaths">%s</property>\n' % swath)
f.write(' <property name="esdcoherencethreshold"><value>0.8</value></property>\n')
f.write(' <property name="do unwrap"><value>True</value></property>\n')
f.write(' <property name="unwrapper name">snaphu_mcf</property>\n')
f.write(' <property name="do unwrap 2 stage"><value>True</value></property>\n')
f.write(' <property name="unwrapper 2 stage name">MCF</property>\n')
if dem_file:
f.write(' <property name="dem file name">%s</property>\n' % dem_file)
# #f.write(' <property name="filter strength">0.4</property>\n')
if roi_textelement:
f.write(' <property name="region of interest"><value>"%s"</value></property>\n' % roi_textelement)
if geocode2_textelement:
f.write(' <property name="geocode bounding box"><value>"%s"</value></property>\n' % geocode2_textelement)
f.write(" <property name='geocode list'>['merged/filt_topophase_2stage.unw', 'merged/filt_topophase.unw.conncomp', 'merged/topophase.cor', 'merged/filt_topophase.flat', 'merged/filt_topophase.unw', 'merged/phsig.cor', 'merged/los.rdr']</property>\n")
f.write(' <property name="usevirtualfiles"><value>True</value></property>\n')
f.write('</component>\n')
f.write('</topsApp>\n')
f.close()
if dem_file:
#link to dem_file
#print 'dem_file: ' + dem_file
if dem_file.endswith('.xml') == False:
dem_file_xml_fname = dem_file + '.xml'
dem_file_vrt_fname = dem_file + '.vrt'
else:
dem_file_xml_fname = dem_file
dem_file_fname = dem_file_xml_fname[0:-4]
dem_file_vrt_fname = dem_file_xml_fname[0:-4] + '.vrt'
dst = dirname_full_swath
#print 'dst: ' + dst + '\nsymfile: ' + os.path.join(dst, os.path.basename(dem_file_xml_fname))+ '\ndem_file: ' + dem_file
if os.path.exists(os.path.join(dst, os.path.basename(dem_file_xml_fname))) == False:
os.symlink(dem_file_xml_fname, os.path.join(dst, os.path.basename(dem_file_xml_fname)))