added bamrcpath option for pbamrc

mnshgl0110 · Feb 5, 2024 · 927001d · 927001d
1 parent 9a5b7d6
commit 927001d
Showing 1 changed file with 1 addition and 0 deletions.
diff --git a/hometools/hometools.py b/hometools/hometools.py
@@ -2825,6 +2825,7 @@ def main(cmd):
     parser_pbamrc.add_argument("-n", help="Number of CPU cores to use", type=int, default=1)
     parser_pbamrc.add_argument("-S", help="Run jobs in sequentially (each line from bed starts a new job). By default, jobs are run in batches (by dividing the BED file)", action='store_true', default=False)
     parser_pbamrc.add_argument("o", help="Output file name", type=argparse.FileType('w'))
+    parser_pbamrc.add_argument("--bamrcpath", help="Location of bam-readcount executable", type=argparse.FileType('r'))
 
 
     parser_bamcov.set_defaults(func=bamcov)