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Description
Description of feature
Under the supported file formats session, it says "Compressed input is supported and automatically detected. For example, bgzip compression of VCF files, or zstd compression of plink2 variant information files (.pvar)."
However, when I set up 'path_prefix' paramer (/path/chr22.dose.vcf.gz -> /path/chr22.dose) for the samplesheet, it gives me error message: ERROR ~ No such file or directory: /path/chr22.dose.vcf. Turns out it cannot detect the bgzip compression of VCF files, while standard output name from the TOPMed imputation server is "chr*.dose.vcf.gz".
I wonder how to make it work in this case?