.command.sh - Workdir - NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:BAM_RSEQC:RSEQC_JUNCTIONSATURATION (rna_s1200_S21)

File Info

Filename: .command.sh
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2d/c3ac25ba18d07e4026850be2e1a9f4/.command.sh
Size: 412 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:BAM_RSEQC:RSEQC_JUNCTIONSATURATION (rna_s1200_S21)
Attempt

Content

#!/bin/bash -euo pipefail
junction_saturation.py \
    -i rna_s1200_S21.Aligned.sortedByCoord.out.bam rna_s1200_S21.Aligned.sortedByCoord.out.bam.bai \
    -r ref_annot.bed \
    -o rna_s1200_S21 \


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