File Info

Filename
.command.sh
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ee/ce401d42be7ca7dbf5365cb2e95630/.command.sh
Size
556 bytes
Task
NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:BAM_RSEQC:RSEQC_INNERDISTANCE (HD789_0002_RNA_0008_23H5VFLT4_s19)
Attempt

Content

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#!/bin/bash -euo pipefail
inner_distance.py \
    -i HD789_0002_RNA_0008_23H5VFLT4_s19.Aligned.sortedByCoord.out.bam HD789_0002_RNA_0008_23H5VFLT4_s19.Aligned.sortedByCoord.out.bam.bai \
    -r ref_annot.bed \
    -o HD789_0002_RNA_0008_23H5VFLT4_s19 \
     \
    > stdout.txt
head -n 2 stdout.txt > HD789_0002_RNA_0008_23H5VFLT4_s19.inner_distance_mean.txt

cat <<-END_VERSIONS > versions.yml
"NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:BAM_RSEQC:RSEQC_INNERDISTANCE":
    rseqc: $(inner_distance.py --version | sed -e "s/inner_distance.py //g")
END_VERSIONS