From 4e0aadd23ad900ae68c5ea322fa7998afd6252ef Mon Sep 17 00:00:00 2001 From: engreitz Date: Mon, 30 Sep 2019 17:12:07 -0400 Subject: [PATCH] fixed typo in outDir flag --- src/makeCandidateRegions.py | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/src/makeCandidateRegions.py b/src/makeCandidateRegions.py index 3d0ced074..be3bfdd19 100755 --- a/src/makeCandidateRegions.py +++ b/src/makeCandidateRegions.py @@ -18,7 +18,7 @@ class formatter(argparse.ArgumentDefaultsHelpFormatter, argparse.RawTextHelpForm parser.add_argument('--narrowPeak', required=required_args, help="narrowPeak file output by macs2. Must include summits (--call-summits)") parser.add_argument('--bam', required=required_args, help="DNAase-Seq or ATAC-Seq bam file") parser.add_argument('--chrom_sizes', required=required_args, help="File listing chromosome size annotaions") - parser.add_argument('--outdir', required=required_args) + parser.add_argument('--outDir', required=required_args) parser.add_argument('--nStrongestPeaks', default=175000, help="Number of peaks to use for defining candidate regions") parser.add_argument('--peakExtendFromSummit', default=250, help="Number of base pairs to extend each preak from its summit")