{"action":"created","issue":{"url":"https://api.github.com/repos/epam/NGB/issues/212","repository_url":"https://api.github.com/repos/epam/NGB","labels_url":"https://api.github.com/repos/epam/NGB/issues/212/labels{/name}","comments_url":"https://api.github.com/repos/epam/NGB/issues/212/comments","events_url":"https://api.github.com/repos/epam/NGB/issues/212/events","html_url":"https://github.com/epam/NGB/issues/212","id":373312494,"node_id":"MDU6SXNzdWUzNzMzMTI0OTQ=","number":212,"title":"reg_file with index via s3","user":{"login":"vladsaveliev","id":1575412,"node_id":"MDQ6VXNlcjE1NzU0MTI=","avatar_url":"https://avatars0.githubusercontent.com/u/1575412?v=4","gravatar_id":"","url":"https://api.github.com/users/vladsaveliev","html_url":"https://github.com/vladsaveliev","followers_url":"https://api.github.com/users/vladsaveliev/followers","following_url":"https://api.github.com/users/vladsaveliev/following{/other_user}","gists_url":"https://api.github.com/users/vladsaveliev/gists{/gist_id}","starred_url":"https://api.github.com/users/vladsaveliev/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/vladsaveliev/subscriptions","organizations_url":"https://api.github.com/users/vladsaveliev/orgs","repos_url":"https://api.github.com/users/vladsaveliev/repos","events_url":"https://api.github.com/users/vladsaveliev/events{/privacy}","received_events_url":"https://api.github.com/users/vladsaveliev/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":2,"created_at":"2018-10-24T05:37:28Z","updated_at":"2018-10-31T23:46:37Z","closed_at":null,"author_association":"NONE","body":"Hi,\r\n\r\nTrying to register a bam file via S3, but getting error, even though the corresponding `.bai` file is there:\r\n\r\n```\r\ndocker exec -it ngbcore bash -c 'ngb reg_file hg38 s3://umccr-primary-data-dev/COLO829BL/LR_2.2.2/phased_possorted_bam.bam -n input_BAM'\r\n05:26:14.138 [main] ERROR com.epam.ngb.cli.app.Application - Index file is required for file [s3://umccr-primary-data-dev/COLO829BL/LR_2.2.2/phased_possorted_bam.bam].\r\n\r\naws s3 ls s3://umccr-primary-data-dev/COLO829BL/LR_2.2.2/phased_possorted_bam.bam\r\n2018-07-20 23:05:48 161758995212 phased_possorted_bam.bam\r\n2018-07-20 23:05:48   10389304 phased_possorted_bam.bam.bai\r\n```\r\n\r\nCan you advice please? :)\r\n\r\nVlad\r\n\r\n/cc @brainstorm"},"comment":{"url":"https://api.github.com/repos/epam/NGB/issues/comments/434885118","html_url":"https://github.com/epam/NGB/issues/212#issuecomment-434885118","issue_url":"https://api.github.com/repos/epam/NGB/issues/212","id":434885118,"node_id":"MDEyOklzc3VlQ29tbWVudDQzNDg4NTExOA==","user":{"login":"brainstorm","id":175587,"node_id":"MDQ6VXNlcjE3NTU4Nw==","avatar_url":"https://avatars2.githubusercontent.com/u/175587?v=4","gravatar_id":"","url":"https://api.github.com/users/brainstorm","html_url":"https://github.com/brainstorm","followers_url":"https://api.github.com/users/brainstorm/followers","following_url":"https://api.github.com/users/brainstorm/following{/other_user}","gists_url":"https://api.github.com/users/brainstorm/gists{/gist_id}","starred_url":"https://api.github.com/users/brainstorm/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/brainstorm/subscriptions","organizations_url":"https://api.github.com/users/brainstorm/orgs","repos_url":"https://api.github.com/users/brainstorm/repos","events_url":"https://api.github.com/users/brainstorm/events{/privacy}","received_events_url":"https://api.github.com/users/brainstorm/received_events","type":"User","site_admin":false},"created_at":"2018-10-31T23:46:37Z","updated_at":"2018-10-31T23:46:37Z","author_association":"NONE","body":"@SilinPavel More precisely, we mean this:\r\n\r\nhttps://github.com/brainstorm/NGB/commit/a91798ce6d8f1afb031b350a02c8ba98ff15f477#diff-7d2cf1651d997044f9f512e0a37b5013\r\n\r\nIt basically picks up what's available where the client is running, avoiding burning secrets into AWS AMI's."}}
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