09-19-2016
set -x showed that, while I am still not sure of the best way to accomplish this, the final
vcf.gz that comes from the
001 folder is called
variants.vcf.gz. The final
vcf.gz that comes from the
002 folder is also called
variants.vcf.gz. So unless the files are named differently somehow they are always going to be replaced. Thank you
.
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