.command.sh - Workdir - NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:BAM_RSEQC:RSEQC_READDISTRIBUTION (BT-20_FFPE_RNA_0001_B23LG7FLT4_1)

File Info

Filename: .command.sh
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7e/5407876a21e557ddd97076c2aec8f2/.command.sh
Size: 479 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:BAM_RSEQC:RSEQC_READDISTRIBUTION (BT-20_FFPE_RNA_0001_B23LG7FLT4_1)
Attempt

Content

#!/bin/bash -euo pipefail
read_distribution.py \
    -i BT-20_FFPE_RNA_0001_B23LG7FLT4_1.Aligned.sortedByCoord.out.bam BT-20_FFPE_RNA_0001_B23LG7FLT4_1.Aligned.sortedByCoord.out.bam.bai \
    -r ref_annot.bed \
    > BT-20_FFPE_RNA_0001_B23LG7FLT4_1.read_distribution.txt

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