{"action":"created","issue":{"url":"https://api.github.com/repos/yarden/MISO/issues/122","repository_url":"https://api.github.com/repos/yarden/MISO","labels_url":"https://api.github.com/repos/yarden/MISO/issues/122/labels{/name}","comments_url":"https://api.github.com/repos/yarden/MISO/issues/122/comments","events_url":"https://api.github.com/repos/yarden/MISO/issues/122/events","html_url":"https://github.com/yarden/MISO/issues/122","id":346563481,"node_id":"MDU6SXNzdWUzNDY1NjM0ODE=","number":122,"title":"MISO Output error","user":{"login":"ibmuller","id":41695297,"node_id":"MDQ6VXNlcjQxNjk1Mjk3","avatar_url":"https://avatars2.githubusercontent.com/u/41695297?v=4","gravatar_id":"","url":"https://api.github.com/users/ibmuller","html_url":"https://github.com/ibmuller","followers_url":"https://api.github.com/users/ibmuller/followers","following_url":"https://api.github.com/users/ibmuller/following{/other_user}","gists_url":"https://api.github.com/users/ibmuller/gists{/gist_id}","starred_url":"https://api.github.com/users/ibmuller/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/ibmuller/subscriptions","organizations_url":"https://api.github.com/users/ibmuller/orgs","repos_url":"https://api.github.com/users/ibmuller/repos","events_url":"https://api.github.com/users/ibmuller/events{/privacy}","received_events_url":"https://api.github.com/users/ibmuller/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":0,"created_at":"2018-08-01T11:40:32Z","updated_at":"2018-08-08T11:39:34Z","closed_at":null,"author_association":"NONE","body":"Hello,\r\n\r\nI recently did a run of MISO but I don't really get an output. It makes all the .miso files but the content shows no PSI values. I get an index error when I try to summarize which i assume is related.\r\n\r\nBelow are a batch log and an example .miso file.\r\n\r\nI just used my own single end, STAR-aligned, indexed and sorted BAM file for input. with the hg19 GFF3 file provided by MISO  for SE. I use Ensembl annotation for everything.\r\n\r\n\r\n[batch-5-07-11-18_13%3A41%3A09.log](https://github.com/yarden/MISO/files/2249265/batch-5-07-11-18_13.3A41.3A09.log)\r\n\r\n[batch-5-07-11-18_13%3A41%3A09.log](https://github.com/yarden/MISO/files/2249262/batch-5-07-11-18_13.3A41.3A09.log)\r\n\r\nAny thoughts?"},"comment":{"url":"https://api.github.com/repos/yarden/MISO/issues/comments/411376558","html_url":"https://github.com/yarden/MISO/issues/122#issuecomment-411376558","issue_url":"https://api.github.com/repos/yarden/MISO/issues/122","id":411376558,"node_id":"MDEyOklzc3VlQ29tbWVudDQxMTM3NjU1OA==","user":{"login":"ibmuller","id":41695297,"node_id":"MDQ6VXNlcjQxNjk1Mjk3","avatar_url":"https://avatars2.githubusercontent.com/u/41695297?v=4","gravatar_id":"","url":"https://api.github.com/users/ibmuller","html_url":"https://github.com/ibmuller","followers_url":"https://api.github.com/users/ibmuller/followers","following_url":"https://api.github.com/users/ibmuller/following{/other_user}","gists_url":"https://api.github.com/users/ibmuller/gists{/gist_id}","starred_url":"https://api.github.com/users/ibmuller/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/ibmuller/subscriptions","organizations_url":"https://api.github.com/users/ibmuller/orgs","repos_url":"https://api.github.com/users/ibmuller/repos","events_url":"https://api.github.com/users/ibmuller/events{/privacy}","received_events_url":"https://api.github.com/users/ibmuller/received_events","type":"User","site_admin":false},"created_at":"2018-08-08T11:39:34Z","updated_at":"2018-08-08T11:39:34Z","author_association":"NONE","body":"\r\n[chr18%3A75849228%3A75849581%3A-@chr18%3A75847590%3A75847738%3A-@chr18%3A75838319%3A75838689%3A-.zip](https://github.com/yarden/MISO/files/2270085/chr18.3A75849228.3A75849581.3A-.chr18.3A75847590.3A75847738.3A-.chr18.3A75838319.3A75838689.3A-.zip)\r\n\r\nhere is a .miso file btw. \r\n\r\nit simply doesnt seem to generate any PSI values."}}
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