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Commit 6e63a569 authored by Holly Ruess's avatar Holly Ruess
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fix awk error

parent 1f9debcc
1 merge request!25Resolve "Blacklist of regions"
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workflow/scripts/overlap_peaks.py
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......@@ -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)
......
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