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io: Migrate VCF functions from filter+utils to io #929

Merged
merged 3 commits into from
May 24, 2022
Merged

io: Migrate VCF functions from filter+utils to io #929

merged 3 commits into from
May 24, 2022

Commits on May 24, 2022

  1. filter: Move write_vcf() and _filename_gz() to augur.utils 

    These functions don't have filtering logic and can be moved next to the existing read_vcf() as a more appropriate scope.
    @victorlin
    victorlin committed May 24, 2022
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  2. Remove unused import of read_vcf()

    @victorlin
    victorlin committed May 24, 2022
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  3. Move VCF functions to io, add io_support for shell_command_runner 

    These VCF functions are specifically IO-related utilities, so moving them to a better scope.
    @victorlin
    victorlin committed May 24, 2022
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