Skip to content

Commit

Permalink
more
Browse files Browse the repository at this point in the history
  • Loading branch information
mcovarr committed Jan 17, 2025
1 parent 2d1cc5b commit 779c502
Showing 1 changed file with 1 addition and 1 deletion.
2 changes: 1 addition & 1 deletion scripts/variantstore/docs/aou/AOU_DELIVERABLES.md
Original file line number Diff line number Diff line change
Expand Up @@ -56,7 +56,7 @@ WHERE
GROUP BY
version```. The version string here appears to be a mix of hardware and software versions. What matters for us is that the last triplet is `3.7.8`. In the Echo callset this query currently returns two rows with `version` values of `SW: 05.021.604.3.7.8` and `SW: 07.021.604.3.7.8`. Assuming this query returns only rows with `3.7.8` as the final triplet, proceed with the second invocation of `GvsBulkIngestGenomes` documented below.
1. `GvsBulkIngestGenomes` variant and reference data ingest
- Assuming the header ingest described above completed successfully, proceed with the loading of variant and reference data.
- If and only if the header ingest described above completed successfully, proceed with the loading of variant and reference data.
- Set `load_vcf_headers` to `false` and `load_vet_and_ref_ranges` to `true` to load variant and reference data.
- **NOTE** Be sure to set the input `drop_state` to ZERO (this will have the effect of dropping GQ0 reference blocks) and set `use_compressed_references` to true (this will further compress the reference data).
- Note: In case of mistakenly ingesting a large number of bad samples, instructions for removing them can be found in [this Jira ticket](https://broadworkbench.atlassian.net/browse/VS-1206)
Expand Down

0 comments on commit 779c502

Please sign in to comment.