From 7450be61d9e031631cf0aa0c864fe4f976295450 Mon Sep 17 00:00:00 2001 From: Jover Date: Thu, 17 Nov 2022 16:32:34 -0800 Subject: [PATCH] cdc_titer_column_map: set sr_lot to serum_id The CDC uses the lot numbers in the `sr_lot` column to discuss titer measurements, so it makes more sense to use the lot numbers as the `serum_id`. This commit also removes the mapping for `sr_ferret` to `ferret_id` because the `read_flat` method within `tdb/parse` assigns this `ferret_id` to the `serum_id`, which would overwrite the lot number. Since we don't need the ferret id as the serum id anymore, there's no reason to include it in the mapping. Resolves #126. --- source-data/cdc_titer_column_map.tsv | 3 +-- 1 file changed, 1 insertion(+), 2 deletions(-) diff --git a/source-data/cdc_titer_column_map.tsv b/source-data/cdc_titer_column_map.tsv index 991c726b..aff97e22 100644 --- a/source-data/cdc_titer_column_map.tsv +++ b/source-data/cdc_titer_column_map.tsv @@ -3,8 +3,7 @@ ag_cdc_id virus_cdc_id ag_strain_name virus_strain ag_passage virus_strain_passage sr_strain_name serum_strain -sr_ferret ferret_id -sr_lot lot_number +sr_lot serum_id sr_passage serum_antigen_passage test_date assay_date test_subtype subtype