From 8712b6dea37545c063e0022ea2d700c54fa8f02b Mon Sep 17 00:00:00 2001 From: chaopower Date: Fri, 1 Dec 2023 09:10:50 +0800 Subject: [PATCH] pollution --- script/pollution.py | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/script/pollution.py b/script/pollution.py index ef8776f..ad99fde 100755 --- a/script/pollution.py +++ b/script/pollution.py @@ -261,7 +261,7 @@ if __name__ == '__main__': parser.add_argument('-b', '--ref_bed', help="ref_bed", required=True) parser.add_argument('-v', '--vcf', help="raw vcf for prbe 160 or 17 ; somatic vcf for prbe 682 or 624", required=True) - parser.add_argument('-v2', '--vcf2', help="germline vcf; required when prbe 682 or 624") + parser.add_argument('-v2', '--vcf2', help="germline vcf; required when prbe 682 or 624", default='', required=False, nargs='?') parser.add_argument('-c', '--cnvkit_bed', help="cnvkit_bed; required when prbe 682 or 624") parser.add_argument('-p', '--probe', help="probe, 682, 624, 160, 17 for now ", required=True) parser.add_argument('-o', '--output_dir', help="Output directory, default ./", default='')