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Add NCBI Datasets "virus-name" field
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kimandrews committed Jan 29, 2024
1 parent 9dbf653 commit 23622a8
Showing 1 changed file with 3 additions and 0 deletions.
3 changes: 3 additions & 0 deletions ingest/config/defaults.yaml
Original file line number Diff line number Diff line change
Expand Up @@ -29,6 +29,7 @@ ncbi_datasets_fields:
- submitter-names
- submitter-affiliation
- submitter-country
- virus-name

# Config parameters related to the curate pipeline
curate:
Expand Down Expand Up @@ -59,6 +60,7 @@ curate:
submitter-names: authors
submitter-affiliation: institution
submitter-country: submitter_country
virus-name: virus_name
# Standardized strain name regex
# Currently accepts any characters because we do not have a clear standard for strain names across pathogens
strain_regex: '^.+$'
Expand Down Expand Up @@ -99,6 +101,7 @@ curate:
metadata_columns: [
'accession',
'strain',
'virus_name',
'date',
'region',
'country',
Expand Down

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