Skip to content

Commit

Permalink
ingest: Switch to full_authors and authors fields
Browse files Browse the repository at this point in the history
Switch `authors` to `full_authors` and `abbr_authors` to `authors` so
that the abbreviated author field is used by `augur export` in the
phylogenetic workflow.
  • Loading branch information
joverlee521 committed Nov 20, 2024
1 parent 71feb33 commit ba94429
Showing 1 changed file with 4 additions and 4 deletions.
8 changes: 4 additions & 4 deletions ingest/defaults/config.yaml
Original file line number Diff line number Diff line change
Expand Up @@ -61,7 +61,7 @@ curate:
is-lab-host: is_lab_host
isolate-lineage-source: sample_type
biosample-acc: biosample_accessions
submitter-names: authors
submitter-names: full_authors
submitter-affiliation: institution
submitter-country: submitter_country
# Standardized strain name regex
Expand All @@ -88,11 +88,11 @@ curate:
"los", "nad", "of", "op", "sur", "the", "y"
]
# Metadata field that contains the list of authors associated with the sequence
authors_field: "authors"
authors_field: "full_authors"
# Default value to use if the authors field is empty
authors_default_value: "?"
# Name to use for the generated abbreviated authors field
abbr_authors_field: "abbr_authors"
abbr_authors_field: "authors"
# Path to the manual annotations file
# The path should be relative to the ingest directory
annotations: "defaults/annotations.tsv"
Expand All @@ -119,6 +119,6 @@ curate:
"date_updated",
"sra_accessions",
"authors",
"abbr_authors",
"full_authors",
"institution",
]

0 comments on commit ba94429

Please sign in to comment.