{"action":"created","issue":{"url":"https://api.github.com/repos/jorvis/biocode/issues/32","labels_url":"https://api.github.com/repos/jorvis/biocode/issues/32/labels{/name}","comments_url":"https://api.github.com/repos/jorvis/biocode/issues/32/comments","events_url":"https://api.github.com/repos/jorvis/biocode/issues/32/events","html_url":"https://github.com/jorvis/biocode/issues/32","id":63816763,"number":32,"title":"write_fasta_from_gff.py silently ignores a (potentially large) portion of the input gff","user":{"login":"jonathancrabtree","id":5394345,"avatar_url":"https://avatars.githubusercontent.com/u/5394345?v=3","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},"labels":[],"state":"open","locked":false,"assignee":null,"milestone":null,"comments":2,"created_at":"2015-03-23T19:50:47Z","updated_at":"2015-03-23T20:07:51Z","closed_at":null,"body":"Running write_fasta_from_gff.py on the output of convert_metagenemark_gff_to_gff3.py, I observed some large discrepancies between the number of CDS features in the GFF3 file and the number of CDS features written by write_fasta_from_gff.py  In one case the GFF3 file contained 16042 CDS features, but the FASTA output contained only 10299 sequences, a loss of 5743 CDS sequences, ~36% of the total.\r\n\r\n"},"comment":{"url":"https://api.github.com/repos/jorvis/biocode/issues/comments/85171245","html_url":"https://github.com/jorvis/biocode/issues/32#issuecomment-85171245","issue_url":"https://api.github.com/repos/jorvis/biocode/issues/32","id":85171245,"user":{"login":"jonathancrabtree","id":5394345,"avatar_url":"https://avatars.githubusercontent.com/u/5394345?v=3","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":"2015-03-23T20:07:51Z","updated_at":"2015-03-23T20:07:51Z","body":"Closed this prematurely!"}}