added --csv_no_header

README.md

@@ -21,6 +21,7 @@ makes use of
 ## Full usage
 ```
 usage: fastcov.py [-h] [-p POSITION] [-l] [-o OUTPUT_FILE] [-c CSV_OUT]
+                  [--csv_no_header]
                   bamfile [bamfile ...]
 
 Plot the coverage based on some bam files.
@@ -45,4 +46,5 @@ optional arguments:
                         Specify csv data output filename. Use '-' to write to
                         stdout. Will disable plot output by default, specify
                         --output_file to re-enable plot output.
+  --csv_no_header       Suppress column names in csv output.
 ```

fastcov.py

@@ -73,12 +73,12 @@ def fastcov_main():
     if args.csv_out:
         if args.csv_out == '-':
             log('Writing csv to stdout ...')
-            data.to_csv(sys.stdout)
-            log(f'Wrote csv data to stdout')
+            data.to_csv(sys.stdout, header=(not args.csv_no_header))
+            log(f'Wrote csv data to stdout.')
         else:
             log('Writing csv ...')
-            data.to_csv(args.csv_out)
-            log(f'Wrote csv data to {args.csv_out}')
+            data.to_csv(args.csv_out, header=(not args.csv_no_header))
+            log(f'Wrote csv data to {args.csv_out}.')
         if not args.output_file:
             do_plots = False
 

input_interpretation.py

@@ -30,7 +30,10 @@ def parse_args():
     parser.add_argument("-c", "--csv_out",
                         help="Specify csv data output filename. Use '-' to write to stdout. Will disable plot output by default, "
                              "specify --output_file to re-enable plot output.")
+    parser.add_argument("--csv_no_header", action='store_true',
+                        help="Suppress column names in csv output.")
     args = parser.parse_args()
+
     return args