#!/bin/bash -Ceuo pipefail
cnvkit.py export \
    vcf \
    HCC1395_tumor.recalibrated.somatic.call.cns \
    -o HCC1395_tumor_vs_HCC1395_BL.cnvcall.vcf

cat <<-END_VERSIONS > versions.yml
"NFCORE_SAREK:SAREK:BAM_VARIANT_CALLING_SOMATIC_ALL:BAM_VARIANT_CALLING_CNVKIT:CNVKIT_EXPORT":
    cnvkit: $(cnvkit.py version | sed -e 's/cnvkit v//g')
END_VERSIONS