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We are using the Snakemake --stats flag to get workflow stats for GISAID and GenBank ingest to help with #446. If/when we ever upgrade Snakemake to v8, the --stats flag is no longer supported and will need to be removed.
Follow up to #451.
We are using the Snakemake
--stats
flag to get workflow stats for GISAID and GenBank ingest to help with #446. If/when we ever upgrade Snakemake to v8, the--stats
flag is no longer supported and will need to be removed.Upgrading Snakemake is dependent on updating the nextstrain docker-base image and then running the update-image workflow in this repo since the workflows are using the nextstrain/ncov-ingest Docker image.
Alternatively, we can pin Snakemake <8 in this repo, but we can make that decision later.
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