{"action":"created","issue":{"url":"https://api.github.com/repos/nikolaichik/SigmoID/issues/2","labels_url":"https://api.github.com/repos/nikolaichik/SigmoID/issues/2/labels{/name}","comments_url":"https://api.github.com/repos/nikolaichik/SigmoID/issues/2/comments","events_url":"https://api.github.com/repos/nikolaichik/SigmoID/issues/2/events","html_url":"https://github.com/nikolaichik/SigmoID/issues/2","id":55503883,"number":2,"title":"Length threshold","user":{"login":"faultby","id":8282918,"avatar_url":"https://avatars.githubusercontent.com/u/8282918?v=3","gravatar_id":"","url":"https://api.github.com/users/faultby","html_url":"https://github.com/faultby","followers_url":"https://api.github.com/users/faultby/followers","following_url":"https://api.github.com/users/faultby/following{/other_user}","gists_url":"https://api.github.com/users/faultby/gists{/gist_id}","starred_url":"https://api.github.com/users/faultby/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/faultby/subscriptions","organizations_url":"https://api.github.com/users/faultby/orgs","repos_url":"https://api.github.com/users/faultby/repos","events_url":"https://api.github.com/users/faultby/events{/privacy}","received_events_url":"https://api.github.com/users/faultby/received_events","type":"User","site_admin":false},"labels":[{"url":"https://api.github.com/repos/nikolaichik/SigmoID/labels/question","name":"question","color":"cc317c"}],"state":"open","locked":false,"assignee":{"login":"nikolaichik","id":10372591,"avatar_url":"https://avatars.githubusercontent.com/u/10372591?v=3","gravatar_id":"","url":"https://api.github.com/users/nikolaichik","html_url":"https://github.com/nikolaichik","followers_url":"https://api.github.com/users/nikolaichik/followers","following_url":"https://api.github.com/users/nikolaichik/following{/other_user}","gists_url":"https://api.github.com/users/nikolaichik/gists{/gist_id}","starred_url":"https://api.github.com/users/nikolaichik/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/nikolaichik/subscriptions","organizations_url":"https://api.github.com/users/nikolaichik/orgs","repos_url":"https://api.github.com/users/nikolaichik/repos","events_url":"https://api.github.com/users/nikolaichik/events{/privacy}","received_events_url":"https://api.github.com/users/nikolaichik/received_events","type":"User","site_admin":false},"milestone":null,"comments":5,"created_at":"2015-01-26T16:32:50Z","updated_at":"2015-01-27T19:50:30Z","closed_at":null,"body":"At the moment HmmGen.py calculates an upper boundary of feature's length using the \"envfrom\" - \"env to\" columns from hmmer's report, which, I think,  doesn't work correctly.That is how we are trying to avoid those different in length between alignment and the hit regions in genome because the distance between binding sites is essential. \r\nAnd the question is will it be better to use comparing the differences  between \"hmmfrom\"-\"hmmto\" and \"alifrom\"-\"ali to\" to prevent problems with distances? If the differences between them are equal or +-1, then HmmGen leaves it. The upper boundary will be used to set up the length of annotated features in Genbank file."},"comment":{"url":"https://api.github.com/repos/nikolaichik/SigmoID/issues/comments/71715218","html_url":"https://github.com/nikolaichik/SigmoID/issues/2#issuecomment-71715218","issue_url":"https://api.github.com/repos/nikolaichik/SigmoID/issues/2","id":71715218,"user":{"login":"nikolaichik","id":10372591,"avatar_url":"https://avatars.githubusercontent.com/u/10372591?v=3","gravatar_id":"","url":"https://api.github.com/users/nikolaichik","html_url":"https://github.com/nikolaichik","followers_url":"https://api.github.com/users/nikolaichik/followers","following_url":"https://api.github.com/users/nikolaichik/following{/other_user}","gists_url":"https://api.github.com/users/nikolaichik/gists{/gist_id}","starred_url":"https://api.github.com/users/nikolaichik/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/nikolaichik/subscriptions","organizations_url":"https://api.github.com/users/nikolaichik/orgs","repos_url":"https://api.github.com/users/nikolaichik/repos","events_url":"https://api.github.com/users/nikolaichik/events{/privacy}","received_events_url":"https://api.github.com/users/nikolaichik/received_events","type":"User","site_admin":false},"created_at":"2015-01-27T19:50:30Z","updated_at":"2015-01-27T19:50:30Z","body":"Well, after running several checks with different profiles using \"envfrom\" - \"env to\" seems to create more problems than it was supposed to solve. So we're probably better off with your original proposal to use \"alifrom\"-\"ali to\""}}