{"action":"created","issue":{"url":"https://api.github.com/repos/GMOD/jbrowse/issues/794","repository_url":"https://api.github.com/repos/GMOD/jbrowse","labels_url":"https://api.github.com/repos/GMOD/jbrowse/issues/794/labels{/name}","comments_url":"https://api.github.com/repos/GMOD/jbrowse/issues/794/comments","events_url":"https://api.github.com/repos/GMOD/jbrowse/issues/794/events","html_url":"https://github.com/GMOD/jbrowse/issues/794","id":168302933,"number":794,"title":"flatfile-to-json.pl and GTF","user":{"login":"Carlbioinfo","id":4893240,"avatar_url":"https://avatars.githubusercontent.com/u/4893240?v=3","gravatar_id":"","url":"https://api.github.com/users/Carlbioinfo","html_url":"https://github.com/Carlbioinfo","followers_url":"https://api.github.com/users/Carlbioinfo/followers","following_url":"https://api.github.com/users/Carlbioinfo/following{/other_user}","gists_url":"https://api.github.com/users/Carlbioinfo/gists{/gist_id}","starred_url":"https://api.github.com/users/Carlbioinfo/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/Carlbioinfo/subscriptions","organizations_url":"https://api.github.com/users/Carlbioinfo/orgs","repos_url":"https://api.github.com/users/Carlbioinfo/repos","events_url":"https://api.github.com/users/Carlbioinfo/events{/privacy}","received_events_url":"https://api.github.com/users/Carlbioinfo/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":2,"created_at":"2016-07-29T11:12:22Z","updated_at":"2016-08-03T16:47:14Z","closed_at":null,"body":"Using flatfile-to-json.pl to add GTF (GFF3 to GTF with gffread software) doesn't show hat between introns , but adding the same file through Track > Open track file or URL shows the hat."},"comment":{"url":"https://api.github.com/repos/GMOD/jbrowse/issues/comments/237294772","html_url":"https://github.com/GMOD/jbrowse/issues/794#issuecomment-237294772","issue_url":"https://api.github.com/repos/GMOD/jbrowse/issues/794","id":237294772,"user":{"login":"cmdcolin","id":6511937,"avatar_url":"https://avatars.githubusercontent.com/u/6511937?v=3","gravatar_id":"","url":"https://api.github.com/users/cmdcolin","html_url":"https://github.com/cmdcolin","followers_url":"https://api.github.com/users/cmdcolin/followers","following_url":"https://api.github.com/users/cmdcolin/following{/other_user}","gists_url":"https://api.github.com/users/cmdcolin/gists{/gist_id}","starred_url":"https://api.github.com/users/cmdcolin/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/cmdcolin/subscriptions","organizations_url":"https://api.github.com/users/cmdcolin/orgs","repos_url":"https://api.github.com/users/cmdcolin/repos","events_url":"https://api.github.com/users/cmdcolin/events{/privacy}","received_events_url":"https://api.github.com/users/cmdcolin/received_events","type":"User","site_admin":false},"created_at":"2016-08-03T16:47:13Z","updated_at":"2016-08-03T16:47:13Z","body":"I'd just double what @vivekkrish says. The flatfile-to-json does not support GTF basically. You mentioned converting gff3 to gtf for use in flatfile-to-json, but i'd just use the gff3 originally."}}
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