File Info

Filename
.command.sh
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/32/b0ec13f780e0b7021bcd5f9bbad0e4/.command.sh
Size
572 bytes
Task
NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:BAM_RSEQC:RSEQC_INNERDISTANCE (BreastNB_FFPE_L01_RNA_01_B23LG7FLT4_1)
Attempt

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#!/bin/bash -euo pipefail
inner_distance.py \
    -i BreastNB_FFPE_L01_RNA_01_B23LG7FLT4_1.Aligned.sortedByCoord.out.bam BreastNB_FFPE_L01_RNA_01_B23LG7FLT4_1.Aligned.sortedByCoord.out.bam.bai \
    -r ref_annot.bed \
    -o BreastNB_FFPE_L01_RNA_01_B23LG7FLT4_1 \
     \
    > stdout.txt
head -n 2 stdout.txt > BreastNB_FFPE_L01_RNA_01_B23LG7FLT4_1.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