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IKIM-Essen / uncovar

Transparent and robust SARS-CoV-2 variant calling and lineage assignment with comprehensive reporting.
https://ikim-essen.github.io/uncovar
BSD 2-Clause "Simplified" License
20 stars 7 forks source link

-Oz generates a .vcf.gz!! #570

Open github-actions[bot] opened 1 year ago

github-actions[bot] commented 1 year ago

https://github.com/IKIM-Essen/uncovar/blob/a0b6fd0557b7e6cb3aeddd22e6a3350560c18415/workflow/rules/variant_calling.smk#L103


    conda:
        "../envs/bcftools.yaml"
    shell:
        "bcftools view -Oz -o {output} {input} 2> {log}"  # TODO -Oz generates a .vcf.gz!!

rule render_scenario: