File Info

Filename
.command.sh
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c3/a213c9835df4eb65484de9767dd014/.command.sh
Size
552 bytes
Task
NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:BAM_RSEQC:RSEQC_INNERDISTANCE (786-O_FFPE_RNA_0001_B23LG7FLT4_3)
Attempt

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#!/bin/bash -euo pipefail
inner_distance.py \
    -i 786-O_FFPE_RNA_0001_B23LG7FLT4_3.Aligned.sortedByCoord.out.bam 786-O_FFPE_RNA_0001_B23LG7FLT4_3.Aligned.sortedByCoord.out.bam.bai \
    -r ref_annot.bed \
    -o 786-O_FFPE_RNA_0001_B23LG7FLT4_3 \
     \
    > stdout.txt
head -n 2 stdout.txt > 786-O_FFPE_RNA_0001_B23LG7FLT4_3.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