.command.sh - Workdir - DAQ:MARKDUPLICATES_SENTIEON (Filler-D0000335)

File Info

Filename: .command.sh
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4c/b0ef85a84da5c734a943e5c7686a25/.command.sh
Size: 532 bytes
Task: DAQ:MARKDUPLICATES_SENTIEON (Filler-D0000335)
Attempt

Content

#!/bin/bash -Ceuo pipefail
sentieon driver -t 31 -i Filler-D0000335.bam -r Homo_sapiens_assembly38.fasta --algo LocusCollector  --fun score_info Filler-D0000335.md.score

sentieon driver -t 31 -i Filler-D0000335.bam -r Homo_sapiens_assembly38.fasta --algo Dedup  --score_info Filler-D0000335.md.score --metrics Filler-D0000335.md.metrics Filler-D0000335.md.bam

cat <<-END_VERSIONS > versions.yml
"DAQ:MARKDUPLICATES_SENTIEON":
    sentieon: $(echo $(sentieon driver --version 2>&1) | sed -e "s/sentieon-genomics-//g")
END_VERSIONS