File Info

Filename
.command.sh
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/95/e5b2decbc2eeefe18d923ebe730e03/.command.sh
Size
634 bytes
Task
DAQ:MARKDUPLICATES_SENTIEON (1029_BMFL-N1-BDNA-1_B23KGCJLT4_1)
Attempt

Content

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#!/bin/bash -Ceuo pipefail
sentieon driver -t 31 -i 1029_BMFL-N1-BDNA-1_B23KGCJLT4_1.bam -r Homo_sapiens_assembly38.fasta --algo LocusCollector  --fun score_info 1029_BMFL-N1-BDNA-1_B23KGCJLT4_1.md.score

sentieon driver -t 31 -i 1029_BMFL-N1-BDNA-1_B23KGCJLT4_1.bam -r Homo_sapiens_assembly38.fasta --algo Dedup  --score_info 1029_BMFL-N1-BDNA-1_B23KGCJLT4_1.md.score --metrics 1029_BMFL-N1-BDNA-1_B23KGCJLT4_1.md.metrics 1029_BMFL-N1-BDNA-1_B23KGCJLT4_1.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