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VS-1483 Update AoU documentation to include details for VAT delivery #8967

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merged 7 commits into from
Sep 9, 2024
Merged

VS-1483 Update AoU documentation to include details for VAT delivery #8967

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1dc7c52
Update documentation to include steps for delivery of VAT to AoU RWB.
gbggrant Aug 28, 2024
27f6130
Updates per code review feedback.
gbggrant Aug 30, 2024
5a160ec
Merge remote-tracking branch 'origin/ah_var_store' into gg_VS-1483_Up…
gbggrant Sep 4, 2024
1c22248
Update documentation to point to Google doc describing deliverables f…
gbggrant Sep 4, 2024
36064c3
Minor syntax change
gbggrant Sep 4, 2024
017053c
Merge remote-tracking branch 'origin/ah_var_store' into gg_VS-1483_Up…
gbggrant Sep 9, 2024
d826270
Code review input
gbggrant Sep 9, 2024
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8 changes: 7 additions & 1 deletion scripts/variantstore/docs/aou/AOU_DELIVERABLES.md
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Expand Up @@ -99,9 +99,15 @@ The Callset Stats and S&P files can be simply `gsutil cp`ed to the AoU delivery
## Running the VAT pipeline
To create a BigQuery table of variant annotations, you may follow the instructions here:
[process to create variant annotations table](../../variant_annotations_table/README.md)

The pipeline takes in the VDS and outputs a variant annotations table in BigQuery.

Once the VAT table is created and a tsv is exported, the AoU research workbench team should be notified of its creation and permission should be granted so that several members of the team have view permission.

- Grant `BigQuery Data Viewer` permission to specific people's PMI-OPS accounts. This will include members of the AoU research workbench team.
- Copy the bgzipped, tarred export of the VAT into the pre-delivery bucket.
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Is this gs://prod-drc-broad (confusingly also referred to in this same document as the "delivery bucket")? Also any suggested path for the VAT tarball or is that something for the Google Doc below?

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I've put that all in the linked Google Doc.

- Send an email out notifying the AoU research workbench team of the readiness of the VAT. Additionally, a RW Jira ticket will be made by project management to request copying the VAT to pre-prod.
- A document describing how this information was shared (for previous callsets) is located [here](https://docs.google.com/document/d/1caqgCS1b_dDJXQT4L-tRxjOkLGDgRNkO9eac1xd9ib0/edit)

## Additional Deliverables

### Smaller Interval Lists
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