Merge pull request #19 from bodegalab/fix_escape_warning

Fix invalid escape sequence warning message
bodegalab · Sep 19, 2024 · 22ef8a8 · 22ef8a8
2 parents 20d0e3f + c63c220
commit 22ef8a8
Showing 1 changed file with 2 additions and 2 deletions.
diff --git 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}'