.command.sh - Workdir - NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:BAM_RSEQC:RSEQC_READDUPLICATION (659_bGW-T1-TRNA-1_A23MVY2LT4_2)

File Info

Filename: .command.sh
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/33/0a0d54b6f92d739c40f85556633c09/.command.sh
Size: 428 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:BAM_RSEQC:RSEQC_READDUPLICATION (659_bGW-T1-TRNA-1_A23MVY2LT4_2)
Attempt

Content

#!/bin/bash -euo pipefail
read_duplication.py \
    -i 659_bGW-T1-TRNA-1_A23MVY2LT4_2.Aligned.sortedByCoord.out.bam 659_bGW-T1-TRNA-1_A23MVY2LT4_2.Aligned.sortedByCoord.out.bam.bai \
    -o 659_bGW-T1-TRNA-1_A23MVY2LT4_2 \


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