File Info

Filename
.command.sh
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e0/e2c939369663a40ea8f37c7af7f08c/.command.sh
Size
633 bytes
Task
DAQ:BAM_POSTDEDUP_QC:SENTIEON_HSMETRICS (HCC1395_tumor)
Attempt

Content

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#!/bin/bash -Ceuo pipefail
sentieon driver \
    -t 31 \
    -r Homo_sapiens_assembly38.fasta \
    -i HCC1395_tumor.md.bam \
     \
    --algo HsMetricAlgo \
    --targets_list targets/altera_v3_targets_noncoding_postQC_hg38.bed \
    --baits_list baits/xgen-exome-hyb-panel-v2_AND_altera_v3_probes_short_hg38_AND_cdx_spike_custom30off4x_hg38_AND_foresight_clarity.bed \
    HCC1395_tumor_altera_v3_targets_noncoding_postQC_hg38.sentieon.hs_metrics

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