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nextstrain / ncov-ingest

A pipeline that ingests SARS-CoV-2 (i.e. nCoV) data from GISAID and Genbank, transforms it, stores it on S3, and triggers Nextstrain nCoV rebuilds.
MIT License
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Pass threads to Nextclade #461

Closed joverlee521 closed 4 months ago

joverlee521 commented 4 months ago

Description of proposed changes

Follow up to https://github.com/nextstrain/ncov-ingest/pull/460 Related to #459

Checklist

joverlee521 commented 4 months ago

As stated in https://github.com/nextstrain/ncov-ingest/issues/459#issuecomment-2218918061, merging this ahead of today's automated run to see how explicitly passing threads to Nextclade will affect runtimes.

We will only see the effects when there are new sequences to run through Nextclade so I'll most likely circle back to this ~next week.