.command.sh - Workdir - NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:BAM_RSEQC:RSEQC_READDUPLICATION (GM24385_0001_RNA_0001_23H5VFLT4_s24)

File Info

Filename: .command.sh
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/73/9bbad8a7d55daaac9dffb120d21986/.command.sh
Size: 443 bytes
Task: NFCORE_RNAFUSION:RNAFUSION:QC_WORKFLOW:BAM_RSEQC:RSEQC_READDUPLICATION (GM24385_0001_RNA_0001_23H5VFLT4_s24)
Attempt

Content

#!/bin/bash -euo pipefail
read_duplication.py \
    -i GM24385_0001_RNA_0001_23H5VFLT4_s24.Aligned.sortedByCoord.out.bam GM24385_0001_RNA_0001_23H5VFLT4_s24.Aligned.sortedByCoord.out.bam.bai \
    -o GM24385_0001_RNA_0001_23H5VFLT4_s24 \


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