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Hi,

When running this in a for-loop for each chromosome, the out.* file will constantly be overridden, will it not? In either case, it would be great if there is a flag to name those out.* files, or if the out.* file is automatically named after the base name of the input files. For example: cohort1.chr1.vcf.gz would lead to cohort1.chr1.out.*

Thanks!

Sander