add configuration file as requested argument

README.md

@@ -87,10 +87,11 @@ For concentration conversion, parameters are needed in algo/ptrms_lib/conf/conf_
 ```
 * For a a list of files
 
-Usage: python3 src/converter/PtrmsConverter.py [options] <infiles>
+Usage: python3 src/converter/PtrmsConverter.py [options] <conf-file> <infiles>
 
 Args:
   <infiles> : list of files to process
+  <conf-file> : path of the configuration file
 
 Options:
   -h, --help            show this help message and exit
@@ -98,8 +99,6 @@ Options:
                         Process only this product. All by default
   -o OUT_DIR, --out_dir=OUT_DIR
                         force a specific output directory
-  -c CONF, --configuration-file=CONF
-                        Full path of the configuration file
   -d CACHE_DIR, --cache_dir=CACHE_DIR
                         Directory of the temporary files
 

src/converter/PtrmsConverter.py

@@ -578,11 +578,12 @@ class PtrmsConverter(Converter.Converter):
         """
         parser = OptionParser()
 
-        parser.usage = "python3 " + app + ".py [options] <infiles>" + os.linesep
+        parser.usage = "python3 " + app + ".py [options] <conf-file> <infiles>" + os.linesep
         parser.usage += os.linesep
         parser.usage += "with :" + os.linesep
         parser.usage += (
-            "\t<infiles>  full path to the trace gazes file(s) to convert" + os.linesep
+            "\t<infiles>  full path to the trace gazes file(s) to convert" + os.linesep +
+            "\t<conf-file>  full path of the configuration file" + os.linesep
         )
 
         parser.add_option(
@@ -605,15 +606,6 @@ class PtrmsConverter(Converter.Converter):
             help="Output directory",
         )
 
-        parser.add_option(
-            "-c",
-            "--configuration-file",
-            action="store",
-            type="str",
-            dest="conf",
-            help="Full path of the configuration file",
-        )
-
         parser.add_option(
             "-d",
             "--cache_dir",
@@ -625,22 +617,23 @@ class PtrmsConverter(Converter.Converter):
         )
 
         infiles = [sys.argv[-1]]
+        conf = sys.argv[-2]
 
         # check the number of command line arguments
-        if len(sys.argv) < 1:
+        if len(sys.argv) < 2:
             parser.print_help()
-            raise ValueError("Missing command-line options")
+            raise ValueError("Missing command-line arguments")
 
-        return infiles, parser.parse_args()
+        return infiles, conf, parser.parse_args()
 
 
 def main():
     SRC_DIR = os.path.join(
         os.path.dirname(os.path.abspath(__file__)), "..", ".."
     )
-    infiles, (options, arg) = PtrmsConverter.get_parser(__APP__, SRC_DIR)
+    infiles, conf, (options, arg) = PtrmsConverter.get_parser(__APP__, SRC_DIR)
     prog = PtrmsConverter(options.prod_id)
-    prog.process(infiles, options.conf, options.cache_dir, options.outdir, levels=[1])
+    prog.process(infiles, conf, options.cache_dir, options.outdir, levels=[1])
 
 
 if __name__ == "__main__":