KEGG links missing - Githubissues

geneontology / amigo

AmiGO is the public interface for the Gene Ontology.

http://amigo.geneontology.org

BSD 3-Clause "New" or "Revised" License

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Closed pgaudet closed 5 years ago

pgaudet commented 5 years ago

At least from GO:0008948

There is no link to the KEGG reaction.

Thanks, Pascale

kltm commented 5 years ago

This is an upstream issue with db-xrefs.yaml in go-site/: there is no linkable KEGG information for AmiGO to use.

ValWood commented 5 years ago

this is where we got to when we looked into this https://github.com/pombase/website/issues/763

pgaudet commented 5 years ago

@kltm

Who added this ?

database: KEGG_REACTION name: KEGG Reaction Database generic_urls:
- http://www.genome.jp/kegg/reaction/ entity_types:
- type_name: entity type_id: BET:0000000 id_syntax: R\d+ url_syntax: http://www.genome.jp/dbget-bin/www_bget?rn:[example_id] example_id: KEGG:R02328 example_url: http://www.genome.jp/dbget-bin/www_bget?rn:R02328

Isn't this what you need ?

Thanks, Pascale

kltm commented 5 years ago

@pgaudet No, this is the wrong namespace--we need something for KEGG.

pgaudet commented 5 years ago

I figure it out - this is an ontology problem, the prefix was wrong. I opened a new ticket. https://github.com/geneontology/go-ontology/issues/17506

pgaudet commented 5 years ago

Links now working !