{"action":"closed","issue":{"url":"https://api.github.com/repos/chapmanb/bcbio-nextgen/issues/1860","repository_url":"https://api.github.com/repos/chapmanb/bcbio-nextgen","labels_url":"https://api.github.com/repos/chapmanb/bcbio-nextgen/issues/1860/labels{/name}","comments_url":"https://api.github.com/repos/chapmanb/bcbio-nextgen/issues/1860/comments","events_url":"https://api.github.com/repos/chapmanb/bcbio-nextgen/issues/1860/events","html_url":"https://github.com/chapmanb/bcbio-nextgen/issues/1860","id":214316619,"number":1860,"title":"using globals in vcfanno custom conf","user":{"login":"matthdsm","id":11850640,"avatar_url":"https://avatars3.githubusercontent.com/u/11850640?v=3","gravatar_id":"","url":"https://api.github.com/users/matthdsm","html_url":"https://github.com/matthdsm","followers_url":"https://api.github.com/users/matthdsm/followers","following_url":"https://api.github.com/users/matthdsm/following{/other_user}","gists_url":"https://api.github.com/users/matthdsm/gists{/gist_id}","starred_url":"https://api.github.com/users/matthdsm/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/matthdsm/subscriptions","organizations_url":"https://api.github.com/users/matthdsm/orgs","repos_url":"https://api.github.com/users/matthdsm/repos","events_url":"https://api.github.com/users/matthdsm/events{/privacy}","received_events_url":"https://api.github.com/users/matthdsm/received_events","type":"User","site_admin":false},"labels":[],"state":"closed","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":0,"created_at":"2017-03-15T08:29:37Z","updated_at":"2017-03-17T14:15:47Z","closed_at":"2017-03-17T14:15:47Z","body":"Hi Brad,\r\n\r\nI've been trying to use values from `globals` in the `vcfanno`option\r\ne.g. \r\n```\r\nglobals:\r\n  - eog: path/to/eog.conf\r\n  - jpopgen: path/to/jpopgen.conf\r\nvcfanno: [gemini,eog,jpopgen]\r\n```\r\n\r\nWhen using the `global` options, bcbio goes looking for a likewise named file in `genomes/hsapiens/hg38/vcfanno`\r\n\r\nIs it possible to build in a check for `globals`?\r\n\r\nThanks\r\nM\r\n"}}
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