diff --git a/workflow/scripts/convert_reads.py b/workflow/scripts/convert_reads.py index 325ff24089602e417b418936b44465b54e3ded08..5197a3ef59036581eb7b520415631310a20907f9 100644 --- a/workflow/scripts/convert_reads.py +++ b/workflow/scripts/convert_reads.py @@ -130,7 +130,7 @@ def tn5_shift_tagalign(tag_filename, shitfted_tag_filename): steps = [ "zcat -f %s" % (tag_filename), - r"""awk 'BEGIN{OFS="\t"}{{if ($6 == "+") {{$2 = $2 + 4}}; else if ($6 == "-") {{$3 = $3 - 5}} print $0}}}'""", + r"""awk 'BEGIN{OFS="\t"}{if ($6 == "+") {{$2 = $2 + 4}}; else if ($6 == "-") {{$3 = $3 - 5}} print $0}'""", "gzip -nc"] out, err = utils.run_pipe(steps, outfile=shitfted_tag_filename)