From efbfb13870bbeb502dc4b45d647029dadb2e14ba Mon Sep 17 00:00:00 2001 From: jbelyeu Date: Thu, 9 Apr 2020 13:32:40 -0600 Subject: [PATCH] fixed prefix assignment --- src/informative_site_finder.py | 3 +++ 1 file changed, 3 insertions(+) diff --git a/src/informative_site_finder.py b/src/informative_site_finder.py index 30753a9..f42c95a 100644 --- a/src/informative_site_finder.py +++ b/src/informative_site_finder.py @@ -13,6 +13,7 @@ def get_prefix(vcf): if "chr" in var.CHROM.lower(): chrom_prefix = var.CHROM[:3] return chrom_prefix + return "" def get_position(vcf, denovo, extra, whole_region): locs = [] @@ -26,11 +27,13 @@ def get_position(vcf, denovo, extra, whole_region): )) else: locs.append(loc_template.format( + prefix=get_prefix(vcf), chrom=denovo['chrom'], start=(int(denovo['start']) - extra), end=(int(denovo['start']) + extra) )) locs.append(loc_template.format( + prefix=get_prefix(vcf), chrom=denovo['chrom'], start=(int(denovo['end']) - extra), end=(int(denovo['end']) + extra)