From f365904f4129e62747f32a20cc08919381a68735 Mon Sep 17 00:00:00 2001
From: Benedetto Polimeni <polimeni@ingm.org>
Date: Wed, 18 Sep 2024 15:17:59 +0000
Subject: [PATCH] Fix invalid escape sequence warning message

---
 irescue/map.py | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/irescue/map.py b/irescue/map.py
index 9777af9..31f4f10 100644
--- a/irescue/map.py
+++ b/irescue/map.py
@@ -202,9 +202,9 @@ def isec(bamFile, bedFile, whitelist, CBtag, UMItag, bpOverlap, fracOverlap,
     cmd = f'{bedtools} intersect -a {stream} -b {refFile} '
     cmd += f' -split -bed -wo -sorted {ovfrac} | gawk -vOFS="\\t" \'{ovbp} '
     # remove mate information from read name
-    cmd += ' { sub(/\/[12]$/,"",$4); '
+    cmd += ' { sub(/\\/[12]$/,"",$4); '
     # concatenate CB and UMI with feature name
-    cmd += ' n=split($4,qname,/\//); '
+    cmd += ' n=split($4,qname,/\\//); '
     cmd += ' print qname[n-1]"\\t"qname[n]"\\t"qname[1]"\\t"$16 }\' '
     cmd += f' | gzip > {isecFile}'