.command.sh - Workdir - DAQ:BAM_POSTDEDUP_QC:MOSDEPTH (13739430-cfDNA)

File Info

Filename: .command.sh
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0e/c2554dc818636e54ca241d2e8240f7/.command.sh
Size: 369 bytes
Task: DAQ:BAM_POSTDEDUP_QC:MOSDEPTH (13739430-cfDNA)
Attempt

Content

#!/bin/bash -Ceuo pipefail
mosdepth \
    --threads 4 \
    --by xgen-exome-research-panel-v2-targets-hg38.bed \
    --fasta Homo_sapiens_assembly38.fasta \
     \
    13739430-cfDNA \
    13739430-cfDNA.md.bam

cat <<-END_VERSIONS > versions.yml
"DAQ:BAM_POSTDEDUP_QC:MOSDEPTH":
    mosdepth: $(mosdepth --version 2>&1 | sed 's/^.*mosdepth //; s/ .*$//')
END_VERSIONS