From 1dc7c529bc1848a6e449e30bab58ba262ebb97f8 Mon Sep 17 00:00:00 2001 From: gbggrant Date: Wed, 28 Aug 2024 14:49:38 -0400 Subject: [PATCH] Update documentation to include steps for delivery of VAT to AoU RWB. --- scripts/variantstore/docs/aou/AOU_DELIVERABLES.md | 14 +++++++++++++- 1 file changed, 13 insertions(+), 1 deletion(-) diff --git a/scripts/variantstore/docs/aou/AOU_DELIVERABLES.md b/scripts/variantstore/docs/aou/AOU_DELIVERABLES.md index d69edaf4136..6a8fd53cc40 100644 --- a/scripts/variantstore/docs/aou/AOU_DELIVERABLES.md +++ b/scripts/variantstore/docs/aou/AOU_DELIVERABLES.md @@ -99,9 +99,21 @@ 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 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. As of the Echo release, these accounts were: + +- Copy the bgzipped, tarred export of the VAT into the pre-delivery bucket. For the Echo release, it was copied to `gs://prod-drc-broad/v8/wgs/vat/aou_srwgs_short_variants_v8r1.vat.bgz.tsv.gz` +- Finally, an email should be sent out notifying the AoU research workbench team (and others) of the readiness of the VAT. For echo, the email had the subject line: `Variant Annotations Table delivered for v8 srWGS joint callset` (it may just be easiest to find that email and modify it accordingly for the release you are working on.) + ## Additional Deliverables ### Smaller Interval Lists