#!/bin/bash -Ceuo pipefail
sentieon driver \
     \
    -r Homo_sapiens_assembly38.fasta \
    -t 12 \
    --interval chr21_44120631-44120778.bed.gz \
    -i HCC1395_BL.recalibrated.bam \
     \
    --algo Haplotyper -d dbsnp_146.hg38.vcf.gz  --emit_mode variant HCC1395_BL.haplotyper.chr21_44120631-44120778.bed.unfiltered.vcf.gz \


cat <<-END_VERSIONS > versions.yml
"NFCORE_SAREK:SAREK:BAM_VARIANT_CALLING_GERMLINE_ALL:BAM_VARIANT_CALLING_SENTIEON_HAPLOTYPER_RF:BAM_VARIANT_CALLING_SENTIEON_HAPLOTYPER:SENTIEON_HAPLOTYPER":
    sentieon: $(echo $(sentieon driver --version 2>&1) | sed -e "s/sentieon-genomics-//g")
END_VERSIONS