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Add VT URI pattern for OBA to obo.yml #1020

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Merged
jamesaoverton merged 5 commits into from
Feb 10, 2025
Merged

Add VT URI pattern for OBA to obo.yml #1020

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c00c619
Add VT URI pattern for OBA to obo.yml
matentzn Feb 7, 2025
66fb192
Update oba.yml to use OLS as term browser
matentzn Feb 7, 2025
925d7a4
Update obo.yml
matentzn Feb 7, 2025
89070e4
Update OBA URL redirect pattern in obo.yml
matentzn Feb 7, 2025
fafe49d
Fixes for OBA VT ID changes
jamesaoverton Feb 10, 2025
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2 changes: 1 addition & 1 deletion config/oba.yml
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Original file line number Diff line number Diff line change
Expand Up @@ -44,6 +44,6 @@ entries:
- prefix: /
replacement: https://github.com/obophenotype/bio-attribute-ontology/releases/latest/download/

term_browser: ontobee
term_browser: ols
example_terms:
- OBA_0000001
11 changes: 11 additions & 0 deletions config/obo.yml
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Expand Up @@ -148,6 +148,17 @@ entries:
- from: /DOID_0014667
to: https://disease-ontology.org/?id=DOID:0014667

# Term redirects for OBA
# Some OBA IDs start with VT_, because they were originally sourced from VT
- regex: ^/obo/OBA_([VT]?[VT]?\d+)$
replacement: https://www.ebi.ac.uk/ols4/ontologies/oba/entities/http://purl.obolibrary.org/obo/OBA_$1
status: see other
tests:
- from: /OBA_0000001
to: https://www.ebi.ac.uk/ols4/ontologies/oba/entities/http://purl.obolibrary.org/obo/OBA_0000001
- from: /OBA_VT0000002
to: https://www.ebi.ac.uk/ols4/ontologies/oba/entities/http://purl.obolibrary.org/obo/OBA_VT0000002

### OBO Format Specification
- exact: /oboformat/
replacement: http://owlcollab.github.io/oboformat/doc/obo-syntax.html
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