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biopragmatics / bioregistry

📮 An integrative registry of biological databases, ontologies, and nomenclatures.
https://bioregistry.io
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Update BioCyc collection of metabolic pathway databases #1052

Open IgorRodchenkov opened 4 months ago

IgorRodchenkov commented 4 months ago

Prefix

biocyc

Explanation

E.g. this URI bioregistry.io/biocyc:PWY-7227 resolves to an eror page (not found), but you can continue on that page, search by PWY-7227, and find this page: https://biocyc.org/META/NEW-IMAGE?object=PWY-7227&redirect=T

E.g. there is no such issue with Reactome, etc.

Contributor ORCID

Igor Rodchenkov

bgyori commented 4 months ago

Hi @IgorRodchenkov. I think the issue is that for the default resolver for BioCyc IDs (at http://biocyc.org/getid?id=$1 where $1 stands for the ID), one has to specify the database in which the given ID is defined. In your case, https://bioregistry.io/biocyc:PWY-7227 doesn't contain this but https://bioregistry.io/biocyc:META:PWY-7227 works since it specifies the "META" database which stands for MetaCyc. In your setting is it possible to use META:PWY-7227?