Python: fix hashbang line for python3

hpc/compute_NOBS.py

-#!/usr/bin/env python
+#!/usr/bin/env python3
 # This script computes NOBS.tif, the number of clear observations to compute the SCD, SMOD and SOD syntheses
 # In HAL the dependencies are loaded with module load lis/develop
 # Author: Simon Gascoin
@@ -29,5 +29,3 @@ with rasterio.Env():
 
     with rasterio.open("{}/NOBS_{}.tif".format(outdir,outfile), 'w', **profile) as dst:
         dst.write(S.astype(rasterio.uint16), 1)
-
-

hpc/compute_PSL.py

-#!/usr/bin/env python
+#!/usr/bin/env python3
 # This script computes the Permanent snow area AKA "PSL" in CoSIMS from annnual snow map outputs
 # The PSL of a given year is defined as pixels where snow was always observed when possible from May 01 to Sep 01 of this year
 # In HAL the dependencies are loaded with module load lis/develop
@@ -9,7 +9,7 @@ import numpy as np
 import os,sys
 import numpy as np
 
-# input file is input_dates.txt 
+# input file is input_dates.txt
 # Example: f="/work/OT/siaa/Theia/Neige/SNOW_ANNUAL_MAP_LIS_1.5/S2_with_L8_Densification//T32TNS_20170901_20180831/tmpdir/multitemp_cloud_mask.vrt"
 
 f=sys.argv[1]
@@ -30,7 +30,7 @@ snow = srcSnow.read(range(idx,n))
 obs = srcObs.read(range(idx,n))
 # pixels in p are either snow (1), cloud (1) or no snow (0)
 p=snow+obs
-# PSL corresponds to pixels always flagged as snow or cloud 
+# PSL corresponds to pixels always flagged as snow or cloud
 PSL=np.all(p,axis=0)
 
 # output file suffix
@@ -46,4 +46,3 @@ with rasterio.Env():
 
     with rasterio.open("{}/PSL_{}.tif".format(fdir,outfile), 'w', **profile) as dst:
         dst.write(PSL.astype(rasterio.uint8), 1)
-

hpc/compute_SOD_SMOD.py

-#!/usr/bin/env python
+#!/usr/bin/env python3
 # This script computes the snow onset date (SOD) and the snow melt-out date (SMOD) from a stack of daily snow maps
 # The dates are given in number of days since the first day of the synthesis (usually September 01)
 # In HAL the dependencies are loaded with module load lis/develop
@@ -9,12 +9,12 @@ import numpy as np
 import itertools,operator,sys,os
 
 # input file is the interpolated daily raster (1=snow,0=nosnow)
-# Example: /work/OT/siaa/Theia/Neige/SNOW_ANNUAL_MAP_LIS_1.5/S2_with_L8_Densification//T31TCH_20160901_20170831/DAILY_SNOW_MASKS_T31TCH_20160901_20170831.tif             
+# Example: /work/OT/siaa/Theia/Neige/SNOW_ANNUAL_MAP_LIS_1.5/S2_with_L8_Densification//T31TCH_20160901_20170831/DAILY_SNOW_MASKS_T31TCH_20160901_20170831.tif
 f=sys.argv[1]
 src=rasterio.open(f, 'r')
 print("Start compute_SOD_SMOD.py using: ",f)
 
-# memory heavy, load all raster bands in memory 
+# memory heavy, load all raster bands in memory
 # runs in 23 min in HAl with 100 Gb RAM: qsub -I -l select=1:ncpus=4:mem=100000mb -l walltime=05:00:00
 # 20 Gb should be fine: qsub -I -l walltime=00:50:00 -l select=1:ncpus=1:mem=20000mb
 W = src.read(list(range(1,365)))
@@ -41,9 +41,8 @@ with rasterio.Env():
 
     with rasterio.open("{}/SMOD_{}".format(os.path.split(f)[0],os.path.split(f)[1]), 'w', **profile) as dst:
         dst.write(SMOD.astype(rasterio.uint16), 1)
-        
+
     with rasterio.open("{}/SOD_{}".format(os.path.split(f)[0],os.path.split(f)[1]), 'w', **profile) as dst:
         dst.write(SOD.astype(rasterio.uint16), 1)
 
 print("End of compute_SOD_SMOD.py")
-

hpc/prepare_data_for_snow_annual_map.py

-#!/usr/bin/env python
+#!/usr/bin/env python3
 # -*- coding: utf-8 -*-
 #=========================================================================
 #
@@ -287,5 +287,3 @@ if __name__== "__main__":
     logging.basicConfig(stream=sys.stdout, level=logging.INFO, format=\
         '%(asctime)s - %(filename)s:%(lineno)s - %(levelname)s - %(message)s')
     main()
-
-

hpc/prepare_data_for_snow_monthly_map.py

-#!/usr/bin/env python
+#!/usr/bin/env python3
 # -*- coding: utf-8 -*-
 #=========================================================================
 #
@@ -299,5 +299,3 @@ if __name__== "__main__":
     logging.basicConfig(stream=sys.stdout, level=logging.INFO, format=\
         '%(asctime)s - %(filename)s:%(lineno)s - %(levelname)s - %(message)s')
     main()
-
-

src/python/scripts/build_json.py

-#!/usr/bin/env python
+#!/usr/bin/env python3
 # -*- coding: utf-8 -*-
 
 import os
@@ -53,7 +53,7 @@ conf_template = {"general":{"pout":"",
                           "rm_snow_inside_cloud_min_area":5000},
                 "fsc": {
                         "dofsc": False,
-                        "fscToc_Eq": "1.45*ndsi-0.01", 
+                        "fscToc_Eq": "1.45*ndsi-0.01",
                         "fscOg_Eq": "fscToc/(1-tcd)",
                         "tcd": "",
                         "cosims_mode": False
@@ -179,8 +179,8 @@ LANDSAT8_LASRC_parameters = {"mode":"lasrc",
                  "dem":".*\.tif",
                  "shadow_in_mask":8,
                  "shadow_out_mask":8,
-                 "all_cloud_mask":224, # cloud with high confidence (32+(64+128)) 
-                 "high_cloud_mask":800, # cloud and high cloud with high confidence (32 + (512+256)) 
+                 "all_cloud_mask":224, # cloud with high confidence (32+(64+128))
+                 "high_cloud_mask":800, # cloud and high cloud with high confidence (32 + (512+256))
                  "rf":8}
 
 mission_parameters = {"S2":S2_parameters,\
@@ -257,8 +257,8 @@ def read_product(inputPath, mission):
         # Use in case of SEN2COR to handle differences between maja and sen2cor encoding
         if 'mode' in params:
             conf_json["general"]["mode"] = params["mode"]
- 
-        
+
+
         return conf_json
     else:
         logging.error(inputPath + " doesn't exist.")
@@ -308,11 +308,11 @@ def main():
     group_cloud.add_argument("-red_darkcloud", type=int)
     group_cloud.add_argument("-red_backtocloud", type=int)
     group_cloud.add_argument("-strict_cloud_mask", type=str2bool, help="true/false")
-    
+
     group_fsc = parser.add_argument_group('fsc', 'fractional snow cover parameters')
     group_fsc.add_argument("-fsc", type=str, help="path to tree cover density file, automatically activates sets fsc: dofsc to true")
     group_fsc.add_argument("-cosims_mode", action='store_true', help="CoSIMS mode : Generate CoSIMS formatted outputs.")
-    
+
     group_water_mask = parser.add_argument_group('water_mask', 'water mask parameters')
     group_water_mask.add_argument("-water_mask_path", type=str, help="Path to a raster or a shapefile")
     group_water_mask.add_argument("-water_mask_raster_value", type=int, action='append', help="If the input water_mask_path is a raster, you can specify all the values corresponding " + \
@@ -325,7 +325,7 @@ def main():
     outputPath = os.path.abspath(args.outputPath)
 
     sentinel2Acronyms = ['S2', 'SENTINEL2', 'S2A', 'S2B']
-    
+
     # Test if it is a MAJA output products (generated with MAJA processor version XX)
     # FIXME: This detection based on directory substring detection is very week and error prone
     # FIXME: use a factory and detect by using xml metadata
@@ -428,14 +428,14 @@ def main():
         if not jsonData["inputs"].get("dem"):
             logging.error("No DEM found!")
             return 1
-            
+
         if args.fsc:
             jsonData["fsc"]["dofsc"] = True
             jsonData["fsc"]["tcd"] = os.path.abspath(args.fsc)
             jsonData["fsc"]["cosims_mode"] = args.cosims_mode
         else:
             jsonData["fsc"]["dofsc"] = False
-            
+
         if args.water_mask_path is not None:
             jsonData["water_mask"]["apply"] = True
             suffix = args.water_mask_path.split('.')[-1].lower()

src/python/scripts/run_cloud_removal.py

-#!/usr/bin/env python
+#!/usr/bin/env python3
 # -*- coding: utf-8 -*-
 
 import sys
@@ -27,17 +27,17 @@ def main(argv):
     #load json_file from json files
     with open(json_file) as json_data_file:
       data = json.load(json_data_file)
-    
+
     general = data["general"]
     pout = general.get("pout")
-    
+
     log = general.get("log", True)
     if log:
         sys.stdout = open(op.join(pout, "stdout.log"), 'w')
         sys.stderr = open(op.join(pout, "stderr.log"), 'w')
-    
+
     cloud_removal.run(data)
-      
+
 if __name__ == "__main__":
     if len(sys.argv) != 2 :
         show_help()

src/python/scripts/run_snow_annual_map.py

-#!/usr/bin/env python
+#!/usr/bin/env python3
 # -*- coding: utf-8 -*-
 
 import sys

src/python/scripts/run_snow_detector.py

-#!/usr/bin/env python
+#!/usr/bin/env python3
 # -*- coding: utf-8 -*-
 
 import sys

test/cloud_removal_step3_test.py

-#!/usr/bin/env python
+#!/usr/bin/env python3
 # -*- coding: utf-8 -*-
 
-import sys 
+import sys
 import numpy as np
 from s2snow import cloud_removal
 

test/cloud_removal_step4_test.py

-#!/usr/bin/env python
+#!/usr/bin/env python3
 # -*- coding: utf-8 -*-
 
-import sys 
+import sys
 import numpy as np
 from s2snow import cloud_removal
 

test/otbapp_ComputeCloudMask_test.py

-#!/usr/bin/env python
+#!/usr/bin/env python3
 # -*- coding: utf-8 -*-
 
 import sys
@@ -18,5 +18,5 @@ def main(argv):
 if __name__ == "__main__":
     # Set logging level and format.
     logging.basicConfig(stream=sys.stdout, level=logging.INFO, format='%(asctime)s - %(filename)s:%(lineno)s - %(levelname)s - %(message)s')
-    
+
     main(sys.argv)

test/otbapp_ComputeSnowMask_test.py

-#!/usr/bin/env python
+#!/usr/bin/env python3
 # -*- coding: utf-8 -*-
 
 import sys
@@ -21,5 +21,5 @@ def main(argv):
 if __name__ == "__main__":
     # Set logging level and format.
     logging.basicConfig(stream=sys.stdout, level=logging.INFO, format='%(asctime)s - %(filename)s:%(lineno)s - %(levelname)s - %(message)s')
-    
+
     main(sys.argv)

test/snow_annual_map_test.py

-#!/usr/bin/env python
+#!/usr/bin/env python3
 # -*- coding: utf-8 -*-
 
 import os

utils/profiling_pass1.5.py

-#!/usr/bin/env python
+#!/usr/bin/env python3
 # -*- coding: utf-8 -*-
 #=========================================================================
 #
@@ -30,16 +30,16 @@ def main(argv):
     json_file = argv[0]
     snow_mask = argv[1]
     cloud_mask = argv[2]
-    
+
     # Load json_file from json files
     with open(json_file) as json_data_file:
         data = json.load(json_data_file)
-    
+
     #dummy json
     sd = snow_detector.snow_detector(data)
 
     #
     sd.pass1_5(snow_mask, cloud_mask, 1, 0.85)
-    
+
 if __name__ == '__main__':
     sys.exit(main(sys.argv[1:]))

utils/snow_line.py

-#!/usr/bin/env python
+#!/usr/bin/env python3
 # -*- coding: utf-8 -*-
 #=========================================================================
 #
@@ -30,7 +30,7 @@ def load_histo(histo_path):
         #print(v[:,1])
         #print(v[:,2])
         #b = np.zeros(6).reshape(2, 3)
-        
+
         #print(fsnow_rate)
         print(fsnow_rate[0])
         print(fsnow_rate)
@@ -59,10 +59,10 @@ def print_histo(histo_path):
 	plt.bar(dem, v[:,1], width=width, color="red", label="all")
 	plt.bar([i+0.25*width for i in dem], v[:,2], width=0.5*width, color="blue", alpha=1. , label="snow")
 
-	plt.xticks(dem+width/2., 
+	plt.xticks(dem+width/2.,
            [i for i in dem] )
 
-	plt.legend()	
+	plt.legend()
 	plt.show()
 
 def main():
@@ -73,7 +73,7 @@ def main():
 
     (opts, args) = parser.parse_args()
 
-    if opts.histo_path is None: 
+    if opts.histo_path is None:
         print("A mandatory option is missing\n")
         parser.print_help()
         exit(-1)
@@ -82,4 +82,3 @@ def main():
 
 if __name__ == '__main__':
     main()
-