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broadinstitute / seqr-loading-pipelines

hail-based pipelines for annotating variant callsets and exporting them to elasticsearch
MIT License
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Make clinvar.py cloud agnostic #771

Open jklugherz opened 4 months ago

jklugherz commented 4 months ago

In clinvar.py we download the clinvar vcf and sumission summary to local files and move them explicitly to GCS.

Investigate to see if we can download the file directly to any cloud storage, possibly with hailtop.open().