{"action":"created","issue":{"url":"https://api.github.com/repos/ga4gh/schemas/issues/699","repository_url":"https://api.github.com/repos/ga4gh/schemas","labels_url":"https://api.github.com/repos/ga4gh/schemas/issues/699/labels{/name}","comments_url":"https://api.github.com/repos/ga4gh/schemas/issues/699/comments","events_url":"https://api.github.com/repos/ga4gh/schemas/issues/699/events","html_url":"https://github.com/ga4gh/schemas/pull/699","id":173032033,"number":699,"title":"Replace NCBI taxon ID integer with ontology term","user":{"login":"david4096","id":3795586,"avatar_url":"https://avatars.githubusercontent.com/u/3795586?v=3","gravatar_id":"","url":"https://api.github.com/users/david4096","html_url":"https://github.com/david4096","followers_url":"https://api.github.com/users/david4096/followers","following_url":"https://api.github.com/users/david4096/following{/other_user}","gists_url":"https://api.github.com/users/david4096/gists{/gist_id}","starred_url":"https://api.github.com/users/david4096/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/david4096/subscriptions","organizations_url":"https://api.github.com/users/david4096/orgs","repos_url":"https://api.github.com/users/david4096/repos","events_url":"https://api.github.com/users/david4096/events{/privacy}","received_events_url":"https://api.github.com/users/david4096/received_events","type":"User","site_admin":false},"labels":[{"url":"https://api.github.com/repos/ga4gh/schemas/labels/in%20progress","name":"in progress","color":"ededed"}],"state":"open","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":1,"created_at":"2016-08-24T19:01:59Z","updated_at":"2016-08-24T19:15:53Z","closed_at":null,"pull_request":{"url":"https://api.github.com/repos/ga4gh/schemas/pulls/699","html_url":"https://github.com/ga4gh/schemas/pull/699","diff_url":"https://github.com/ga4gh/schemas/pull/699.diff","patch_url":"https://github.com/ga4gh/schemas/pull/699.patch"},"body":"In #612 I mentioned the inconsistency in representing the NCBI taxon ID as an integer on a reference when the biometadata objects use an Ontology term. This PR closes #612 by replacing the NCBI taxon ID `int32` with an ontology term."},"comment":{"url":"https://api.github.com/repos/ga4gh/schemas/issues/comments/242177347","html_url":"https://github.com/ga4gh/schemas/pull/699#issuecomment-242177347","issue_url":"https://api.github.com/repos/ga4gh/schemas/issues/699","id":242177347,"user":{"login":"mbaudis","id":675030,"avatar_url":"https://avatars.githubusercontent.com/u/675030?v=3","gravatar_id":"","url":"https://api.github.com/users/mbaudis","html_url":"https://github.com/mbaudis","followers_url":"https://api.github.com/users/mbaudis/followers","following_url":"https://api.github.com/users/mbaudis/following{/other_user}","gists_url":"https://api.github.com/users/mbaudis/gists{/gist_id}","starred_url":"https://api.github.com/users/mbaudis/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/mbaudis/subscriptions","organizations_url":"https://api.github.com/users/mbaudis/orgs","repos_url":"https://api.github.com/users/mbaudis/repos","events_url":"https://api.github.com/users/mbaudis/events{/privacy}","received_events_url":"https://api.github.com/users/mbaudis/received_events","type":"User","site_admin":false},"created_at":"2016-08-24T19:15:53Z","updated_at":"2016-08-24T19:15:53Z","body":"-1 on this in the current implementation.\r\n\r\nSpecies is defined in```bio_metadata.Individual.species```\r\n\r\nSo this should be a reference to the individual (or a copy of the same structure, as a fudge). \r\n\r\n```\r\n  // For a representation of an NCBI Taxon ID as an OntologyTerm, see\r\n  // NCBITaxon Ontology\r\n  //   http://www.obofoundry.org/ontology/ncbitaxon.html\r\n  // For example, 'Homo sapiens' has the ID 9606. The NCBITaxon ontology ID for\r\n  // this is NCBITaxon:9606, which has the URI\r\n  // http://purl.obolibrary.org/obo/NCBITaxon_9606\r\n  OntologyTerm species = 7;\r\n```\r\n"}}
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