.command.sh - Workdir - NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:BAM_RSEQC:RSEQC_BAMSTAT (BVT_FFPE_TRNA_brn_01_A23WKFTLT4_3)

File Info

Filename: .command.sh
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c3/67ea47e7abb74545e6f2c9a7f5fe73/.command.sh
Size: 421 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:BAM_RSEQC:RSEQC_BAMSTAT (BVT_FFPE_TRNA_brn_01_A23WKFTLT4_3)
Attempt

Content

#!/bin/bash -euo pipefail
bam_stat.py \
    -i BVT_FFPE_TRNA_brn_01_A23WKFTLT4_3.Aligned.sortedByCoord.out.bam BVT_FFPE_TRNA_brn_01_A23WKFTLT4_3.Aligned.sortedByCoord.out.bam.bai \
     \
    > BVT_FFPE_TRNA_brn_01_A23WKFTLT4_3.bam_stat.txt

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