{"action":"created","issue":{"url":"https://api.github.com/repos/marbl/metAMOS/issues/176","labels_url":"https://api.github.com/repos/marbl/metAMOS/issues/176/labels{/name}","comments_url":"https://api.github.com/repos/marbl/metAMOS/issues/176/comments","events_url":"https://api.github.com/repos/marbl/metAMOS/issues/176/events","html_url":"https://github.com/marbl/metAMOS/issues/176","id":53315138,"number":176,"title":"Warning: library has no sequences","user":{"login":"shellblu","id":10378093,"avatar_url":"https://avatars.githubusercontent.com/u/10378093?v=3","gravatar_id":"","url":"https://api.github.com/users/shellblu","html_url":"https://github.com/shellblu","followers_url":"https://api.github.com/users/shellblu/followers","following_url":"https://api.github.com/users/shellblu/following{/other_user}","gists_url":"https://api.github.com/users/shellblu/gists{/gist_id}","starred_url":"https://api.github.com/users/shellblu/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/shellblu/subscriptions","organizations_url":"https://api.github.com/users/shellblu/orgs","repos_url":"https://api.github.com/users/shellblu/repos","events_url":"https://api.github.com/users/shellblu/events{/privacy}","received_events_url":"https://api.github.com/users/shellblu/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"milestone":null,"comments":2,"created_at":"2015-01-03T20:56:53Z","updated_at":"2015-01-05T14:41:05Z","closed_at":null,"body":"Hi! When I run MetAMOS on mate-paired fastq files, I get the following error. As far as I can tell, Library 3 and 7 look fine, and were generated using the same program as all the other libraries....I tried re-formatting, no luck.\r\n\r\n***********\r\n\r\nStarting Task = preprocess.PREPROCESS\r\nWarning: library 3 has no sequences\r\n\r\nWarning: library 7 has no sequences\r\n\r\n    Job = [[YMBpaired.fastq, CYMpaired.fastq, GalaxyCYN.fastq, CYOpaired.fastq, CYPpaired.fastq, GYMpaired.fastq, GalaxyGYN.fastq, GYOpaired.fastq, GYSpaired.fastq, GYPpaired.fastq, GYRpaired.fastq, GYTpaired.fastq, YMApaired.fastq] -> preprocess.success] completed\r\nCompleted Task = preprocess.Preprocess\r\nStarting Task = assemble.ASSEMBLE\r\nOops, MetAMOS finished with errors! see text in red above for details."},"comment":{"url":"https://api.github.com/repos/marbl/metAMOS/issues/comments/68715932","html_url":"https://github.com/marbl/metAMOS/issues/176#issuecomment-68715932","issue_url":"https://api.github.com/repos/marbl/metAMOS/issues/176","id":68715932,"user":{"login":"skoren","id":923478,"avatar_url":"https://avatars.githubusercontent.com/u/923478?v=3","gravatar_id":"","url":"https://api.github.com/users/skoren","html_url":"https://github.com/skoren","followers_url":"https://api.github.com/users/skoren/followers","following_url":"https://api.github.com/users/skoren/following{/other_user}","gists_url":"https://api.github.com/users/skoren/gists{/gist_id}","starred_url":"https://api.github.com/users/skoren/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/skoren/subscriptions","organizations_url":"https://api.github.com/users/skoren/orgs","repos_url":"https://api.github.com/users/skoren/repos","events_url":"https://api.github.com/users/skoren/events{/privacy}","received_events_url":"https://api.github.com/users/skoren/received_events","type":"User","site_admin":false},"created_at":"2015-01-05T14:41:05Z","updated_at":"2015-01-05T14:41:05Z","body":"Hi,\r\n\r\nAre you able to share your input sequences so we can try to reproduce the error locally? metAMOS will filter our sequences with Ns as well as if the left and right pair names do not share a common prefix. My guess is one of these filters is removing the reads from those libraries."}}