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Published 20 hours ago • verified publisher icon broadinstitute

Callset statistics [VS-560]

Open mcovarr opened this issue 2 years ago • 6 comments

Successful Quickstart run here, has not yet been run on larger datasets.

mcovarr avatar Sep 14 '22 12:09 mcovarr

Codecov Report

:exclamation: No coverage uploaded for pull request base (ah_var_store@3b74d0a). Click here to learn what that means. The diff coverage is n/a.

Additional details and impacted files 
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##             ah_var_store     #8018   +/-   ##
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codecov[bot] avatar Sep 14 '22 12:09 codecov[bot]

So, ran it on a previously run set and it failed as there were rows in the database tables. Then dropped the tables and it failed because I dropped the tables. Presumably need a volatile=true on the CreateTables task (and make it find or create)?

gbggrant avatar Sep 19 '22 18:09 gbggrant

Reran it here and it succeeded, data looks good as far as I can tell.

gbggrant avatar Sep 20 '22 16:09 gbggrant

On the good news front, I compared an export of the "statistics_table" to the callset stats file I generated for Beta and they matched! 👍🏻 (if you're curious, the run is https://app.terra.bio/#workspaces/allofus-drc-wgs-dev/AoU_DRC_WGS_12-6-21_beta_ingest/job_history/45a7764c-9f8f-49e3-b1f6-2bf28ac16b4b)

rsasch avatar Sep 21 '22 20:09 rsasch

now with export to CSV

mcovarr avatar Sep 22 '22 23:09 mcovarr

Successful run here https://app.terra.bio/#workspaces/gvs-dev/mlc%20GVS%20Quickstart%20v3/job_history/3cacea14-3c61-42ef-9370-2677af5e14d3

mcovarr avatar Sep 23 '22 13:09 mcovarr