{"action":"created","issue":{"url":"https://api.github.com/repos/arq5x/gemini/issues/874","repository_url":"https://api.github.com/repos/arq5x/gemini","labels_url":"https://api.github.com/repos/arq5x/gemini/issues/874/labels{/name}","comments_url":"https://api.github.com/repos/arq5x/gemini/issues/874/comments","events_url":"https://api.github.com/repos/arq5x/gemini/issues/874/events","html_url":"https://github.com/arq5x/gemini/issues/874","id":263034418,"number":874,"title":"unrecognized arguments: test.snpeff.vcf.db","user":{"login":"idamaumea","id":32536319,"avatar_url":"https://avatars2.githubusercontent.com/u/32536319?v=4","gravatar_id":"","url":"https://api.github.com/users/idamaumea","html_url":"https://github.com/idamaumea","followers_url":"https://api.github.com/users/idamaumea/followers","following_url":"https://api.github.com/users/idamaumea/following{/other_user}","gists_url":"https://api.github.com/users/idamaumea/gists{/gist_id}","starred_url":"https://api.github.com/users/idamaumea/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/idamaumea/subscriptions","organizations_url":"https://api.github.com/users/idamaumea/orgs","repos_url":"https://api.github.com/users/idamaumea/repos","events_url":"https://api.github.com/users/idamaumea/events{/privacy}","received_events_url":"https://api.github.com/users/idamaumea/received_events","type":"User","site_admin":false},"labels":[],"state":"closed","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":1,"created_at":"2017-10-05T07:55:59Z","updated_at":"2017-10-05T15:18:13Z","closed_at":"2017-10-05T08:41:42Z","author_association":"NONE","body":"Hello\r\n\r\nI am new to programming and new to Gemini, but I am trying to learn, and I understand my question is very very basic. I've had help to get everything in order, and I know that everything works, it's me who doesn't understand why this error occurs. I've tried to start learning by using Gemini's test examples. But I get an error on my .db file. I have tried to google around but I have no clue what I am doing wrong. The .db file has tables, that I have checked (if it matters).\r\n\r\n[idama@mps test]$ gemini query -q select 'chrom from variants' --header test.snpeff.vcf.db\r\nusage: gemini [-h] [-v] [--annotation-dir ANNOTATION_DIR]\r\n              {actionable_mutations,amend,annotate,autosomal_dominant,autosomal_recessive,bcolz_index,browser,burden,comp_hets,db_info,de_novo,dump,examples,fusions,gene_wise,interactions,load,load_chunk,lof_interactions,lof_sieve,mendel_errors,merge_chunks,pathways,qc,query,region,roh,set_somatic,stats,update,windower,x_linked_de_novo,x_linked_dominant,x_linked_recessive}\r\n              ...\r\ngemini: error: unrecognized arguments: test.snpeff.vcf.db\r\n[idama@mps test]$ \r\n\r\n\r\nThank you."},"comment":{"url":"https://api.github.com/repos/arq5x/gemini/issues/comments/334498063","html_url":"https://github.com/arq5x/gemini/issues/874#issuecomment-334498063","issue_url":"https://api.github.com/repos/arq5x/gemini/issues/874","id":334498063,"user":{"login":"roryk","id":414586,"avatar_url":"https://avatars2.githubusercontent.com/u/414586?v=4","gravatar_id":"","url":"https://api.github.com/users/roryk","html_url":"https://github.com/roryk","followers_url":"https://api.github.com/users/roryk/followers","following_url":"https://api.github.com/users/roryk/following{/other_user}","gists_url":"https://api.github.com/users/roryk/gists{/gist_id}","starred_url":"https://api.github.com/users/roryk/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/roryk/subscriptions","organizations_url":"https://api.github.com/users/roryk/orgs","repos_url":"https://api.github.com/users/roryk/repos","events_url":"https://api.github.com/users/roryk/events{/privacy}","received_events_url":"https://api.github.com/users/roryk/received_events","type":"User","site_admin":false},"created_at":"2017-10-05T15:18:13Z","updated_at":"2017-10-05T15:18:13Z","author_association":"COLLABORATOR","body":"haha-- I think I ask questions and then solve them immediately afterward about 50% of the time. :) Thanks for following up!"}}
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