{"action":"created","issue":{"url":"https://api.github.com/repos/dcppc/crosscut-metadata/issues/29","repository_url":"https://api.github.com/repos/dcppc/crosscut-metadata","labels_url":"https://api.github.com/repos/dcppc/crosscut-metadata/issues/29/labels{/name}","comments_url":"https://api.github.com/repos/dcppc/crosscut-metadata/issues/29/comments","events_url":"https://api.github.com/repos/dcppc/crosscut-metadata/issues/29/events","html_url":"https://github.com/dcppc/crosscut-metadata/issues/29","id":352556174,"node_id":"MDU6SXNzdWUzNTI1NTYxNzQ=","number":29,"title":"use of dats.Dimensions instead of dats.Extra properties when parsing dbGAP Data Dictionary","user":{"login":"proccaserra","id":517736,"node_id":"MDQ6VXNlcjUxNzczNg==","avatar_url":"https://avatars1.githubusercontent.com/u/517736?v=4","gravatar_id":"","url":"https://api.github.com/users/proccaserra","html_url":"https://github.com/proccaserra","followers_url":"https://api.github.com/users/proccaserra/followers","following_url":"https://api.github.com/users/proccaserra/following{/other_user}","gists_url":"https://api.github.com/users/proccaserra/gists{/gist_id}","starred_url":"https://api.github.com/users/proccaserra/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/proccaserra/subscriptions","organizations_url":"https://api.github.com/users/proccaserra/orgs","repos_url":"https://api.github.com/users/proccaserra/repos","events_url":"https://api.github.com/users/proccaserra/events{/privacy}","received_events_url":"https://api.github.com/users/proccaserra/received_events","type":"User","site_admin":false},"labels":[],"state":"closed","locked":false,"assignee":{"login":"jonathancrabtree","id":5394345,"node_id":"MDQ6VXNlcjUzOTQzNDU=","avatar_url":"https://avatars0.githubusercontent.com/u/5394345?v=4","gravatar_id":"","url":"https://api.github.com/users/jonathancrabtree","html_url":"https://github.com/jonathancrabtree","followers_url":"https://api.github.com/users/jonathancrabtree/followers","following_url":"https://api.github.com/users/jonathancrabtree/following{/other_user}","gists_url":"https://api.github.com/users/jonathancrabtree/gists{/gist_id}","starred_url":"https://api.github.com/users/jonathancrabtree/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/jonathancrabtree/subscriptions","organizations_url":"https://api.github.com/users/jonathancrabtree/orgs","repos_url":"https://api.github.com/users/jonathancrabtree/repos","events_url":"https://api.github.com/users/jonathancrabtree/events{/privacy}","received_events_url":"https://api.github.com/users/jonathancrabtree/received_events","type":"User","site_admin":false},"assignees":[{"login":"jonathancrabtree","id":5394345,"node_id":"MDQ6VXNlcjUzOTQzNDU=","avatar_url":"https://avatars0.githubusercontent.com/u/5394345?v=4","gravatar_id":"","url":"https://api.github.com/users/jonathancrabtree","html_url":"https://github.com/jonathancrabtree","followers_url":"https://api.github.com/users/jonathancrabtree/followers","following_url":"https://api.github.com/users/jonathancrabtree/following{/other_user}","gists_url":"https://api.github.com/users/jonathancrabtree/gists{/gist_id}","starred_url":"https://api.github.com/users/jonathancrabtree/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/jonathancrabtree/subscriptions","organizations_url":"https://api.github.com/users/jonathancrabtree/orgs","repos_url":"https://api.github.com/users/jonathancrabtree/repos","events_url":"https://api.github.com/users/jonathancrabtree/events{/privacy}","received_events_url":"https://api.github.com/users/jonathancrabtree/received_events","type":"User","site_admin":false}],"milestone":null,"comments":1,"created_at":"2018-08-21T14:06:49Z","updated_at":"2018-08-23T21:00:37Z","closed_at":"2018-08-23T21:00:37Z","author_association":"COLLABORATOR","body":"in https://github.com/dcppc/crosscut-metadata/blob/master/sparql/TOPMed_phs000946_wgs_public_v0.4preview2.jsonld\r\nI noticed that some topmed study variables are declared as dimensions, others as extra-Properties.\r\n\r\nin the transformation code\r\nhttps://github.com/dcppc/crosscut-metadata/blob/master/ccmm/topmed/dna_extracts.py\r\nline 123 seems to create all these extra-properties.\r\n\r\nMapping all entries found in \r\nftp://ftp.ncbi.nlm.nih.gov/dbgap/studies/phs000946/phs000946.v3.p1/pheno_variable_summaries/phs000946.v3.pht005719.v1.TOPMed_WGS_Boston_EO_COPD_Subject_Phenotypes.data_dict.xml\r\nto Dats.dimension would be better.\r\n\r\nAlso, possibly filtering out information about 'funding' and 'sequencing center'\r\n"},"comment":{"url":"https://api.github.com/repos/dcppc/crosscut-metadata/issues/comments/415569558","html_url":"https://github.com/dcppc/crosscut-metadata/issues/29#issuecomment-415569558","issue_url":"https://api.github.com/repos/dcppc/crosscut-metadata/issues/29","id":415569558,"node_id":"MDEyOklzc3VlQ29tbWVudDQxNTU2OTU1OA==","user":{"login":"jonathancrabtree","id":5394345,"node_id":"MDQ6VXNlcjUzOTQzNDU=","avatar_url":"https://avatars0.githubusercontent.com/u/5394345?v=4","gravatar_id":"","url":"https://api.github.com/users/jonathancrabtree","html_url":"https://github.com/jonathancrabtree","followers_url":"https://api.github.com/users/jonathancrabtree/followers","following_url":"https://api.github.com/users/jonathancrabtree/following{/other_user}","gists_url":"https://api.github.com/users/jonathancrabtree/gists{/gist_id}","starred_url":"https://api.github.com/users/jonathancrabtree/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/jonathancrabtree/subscriptions","organizations_url":"https://api.github.com/users/jonathancrabtree/orgs","repos_url":"https://api.github.com/users/jonathancrabtree/repos","events_url":"https://api.github.com/users/jonathancrabtree/events{/privacy}","received_events_url":"https://api.github.com/users/jonathancrabtree/received_events","type":"User","site_admin":false},"created_at":"2018-08-23T21:00:37Z","updated_at":"2018-08-23T21:00:37Z","author_association":"CONTRIBUTOR","body":"Access-restricted metadata should now be handled in a similar fashion."}}
{"actor":{"display_login":"jonathancrabtree"}}