comments + dload folder correction

download_files.py

@@ -4,14 +4,14 @@ import os
 
 #########################################################
 """
-To make this work need to create a .env file:
+To make this work need to create a .env file and install dotenv: 'pip install dotenv':
 USER_NAME = YOUR LOGIN USERNAME (NORMALLY JUST YOUR LAST NAME)
 PHIDATAPASSWORD = YOUR WINDOWS PASSWORD
 """
 #########################################################
 
 
-def download_file(url, dload_location = '../fits_files'):
+def download_file(url, dload_location = '../fits_files/'):
   """
   Download files from the given url and store locally
   
@@ -46,7 +46,9 @@ if __name__ == "__main__":
 
   url = 'https://www2.mps.mpg.de/services/proton/phi/fm/attic/'
 
+  download_folder = '../fits_files/'
+
   for file in files:
 
-    download_file(url + path + file)
+    download_file(url + path + file, dload_location = download_folder)
 

hrt_pipe.py

@@ -80,14 +80,14 @@ def phihrt_pipe(data_f, dark_f = '', flat_f = '', scale_data = True, norm_f = Tr
 
     '''
     PHI-HRT data reduction pipeline
-    1. read in science data (+scaling) open path option + open for several scans at once
+    1. read in science data (+ OPTION: scaling) open path option + open for several scans at once
     2. read in flat field (+scaling)- just accepts one flat field fits file
     3. read in dark field (+scaling)
     4. apply dark field
     5. option to clean flat field with unsharp masking
     6. normalise flat field
     7. apply flat field
-    8. prefilter correction
+    8. apply prefilter
     9. read in field stop
     10. apply field stop
     11. demodulate with const demod matrix
@@ -96,7 +96,7 @@ def phihrt_pipe(data_f, dark_f = '', flat_f = '', scale_data = True, norm_f = Tr
     13. calibration
         a) ghost correction - not implemented yet
         b) cross talk correction
-    14. rte inversion with cmilos
+    14. rte inversion with cmilos (CE, RTE or CE+RTE)
         a) output rte data products to fits file
 
     Parameters
@@ -161,7 +161,7 @@ def phihrt_pipe(data_f, dark_f = '', flat_f = '', scale_data = True, norm_f = Tr
     printc('--------------------------------------------------------------',bcolors.OKGREEN)
 
     overall_time = time.time()
-    
+
     #-----------------
     # READ DATA
     #-----------------
@@ -1005,6 +1005,4 @@ def phihrt_pipe(data_f, dark_f = '', flat_f = '', scale_data = True, norm_f = Tr
     printc('--------------------------------------------------------------',color=bcolors.OKGREEN)
 
 
-    return data
-
-    
+    return data
\ No newline at end of file

run.py

@@ -23,7 +23,7 @@ q_slope = 0.0038
 u_slope = -0.0077
 v_slope = -0.0009
 
-q_int = -0.0056
+q_int = -0.0056 #the offset, normalised to I_c
 u_int = 0.0031
 v_int = -0.0002