Skip to content
Snippets Groups Projects
Commit 6e63a569 authored by Holly Ruess's avatar Holly Ruess
Browse files

fix awk error

parent 1f9debcc
Branches
Tags
1 merge request!25Resolve "Blacklist of regions"
Pipeline #7052 failed with stages
in 21 hours, 45 minutes, and 46 seconds
Hide whitespace changes
Inline Side-by-side
workflow/scripts/overlap_peaks.py
+ 1
− 1
View file @ 6e63a569
......@@ -188,7 +188,7 @@ def blacklist_peaks(experiment, blacklist):
# Remove
steps = [
"bedtools intersect -v -a %s -b %s" % (experiment, blacklist),
"awk 'BEGIN{OFS='\t'} {if ($5>1000) $5=1000; print $0}'",
r"""awk 'BEGIN{OFS="\t"} {if ($5>1000) $5=1000; print $0}'""",
]
out, err = utils.run_pipe(steps, blpo_filename)
......
0% or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment