{"action":"closed","issue":{"url":"https://api.github.com/repos/BD2KGenomics/cgl-docker-lib/issues/123","repository_url":"https://api.github.com/repos/BD2KGenomics/cgl-docker-lib","labels_url":"https://api.github.com/repos/BD2KGenomics/cgl-docker-lib/issues/123/labels{/name}","comments_url":"https://api.github.com/repos/BD2KGenomics/cgl-docker-lib/issues/123/comments","events_url":"https://api.github.com/repos/BD2KGenomics/cgl-docker-lib/issues/123/events","html_url":"https://github.com/BD2KGenomics/cgl-docker-lib/issues/123","id":157730294,"number":123,"title":"toil-rnaseq: toil worker cannot find download_sample","user":{"login":"Jeltje","id":5482232,"avatar_url":"https://avatars.githubusercontent.com/u/5482232?v=3","gravatar_id":"","url":"https://api.github.com/users/Jeltje","html_url":"https://github.com/Jeltje","followers_url":"https://api.github.com/users/Jeltje/followers","following_url":"https://api.github.com/users/Jeltje/following{/other_user}","gists_url":"https://api.github.com/users/Jeltje/gists{/gist_id}","starred_url":"https://api.github.com/users/Jeltje/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/Jeltje/subscriptions","organizations_url":"https://api.github.com/users/Jeltje/orgs","repos_url":"https://api.github.com/users/Jeltje/repos","events_url":"https://api.github.com/users/Jeltje/events{/privacy}","received_events_url":"https://api.github.com/users/Jeltje/received_events","type":"User","site_admin":false},"labels":[],"state":"closed","locked":false,"assignee":{"login":"jvivian","id":7576256,"avatar_url":"https://avatars.githubusercontent.com/u/7576256?v=3","gravatar_id":"","url":"https://api.github.com/users/jvivian","html_url":"https://github.com/jvivian","followers_url":"https://api.github.com/users/jvivian/followers","following_url":"https://api.github.com/users/jvivian/following{/other_user}","gists_url":"https://api.github.com/users/jvivian/gists{/gist_id}","starred_url":"https://api.github.com/users/jvivian/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/jvivian/subscriptions","organizations_url":"https://api.github.com/users/jvivian/orgs","repos_url":"https://api.github.com/users/jvivian/repos","events_url":"https://api.github.com/users/jvivian/events{/privacy}","received_events_url":"https://api.github.com/users/jvivian/received_events","type":"User","site_admin":false},"milestone":null,"comments":4,"created_at":"2016-05-31T17:47:37Z","updated_at":"2016-06-01T22:59:33Z","closed_at":"2016-06-01T22:59:33Z","body":"` toil-rnaseq run aws:us-west-2:jeltje-jobstore-bucket --batchSystem=mesos --mesosMaster mesos-master:5050 --manifest toil-rnaseq-manifest.tsv`\r\n\r\nDies with many repetitions of\r\n\r\n```\r\nWARNING:toil.leader:e349cc50-91b4-4114-9118-7c90bb32667b:       ---TOIL WORKER OUTPUT LOG---\r\nWARNING:toil.leader:e349cc50-91b4-4114-9118-7c90bb32667b:       Traceback (most recent call last):\r\nWARNING:toil.leader:e349cc50-91b4-4114-9118-7c90bb32667b:         File \"/usr/local/lib/python2.7/dist-packages/toil/worker.py\", line 273, in main\r\nWARNING:toil.leader:e349cc50-91b4-4114-9118-7c90bb32667b:           fileStore=fileStore)\r\nWARNING:toil.leader:e349cc50-91b4-4114-9118-7c90bb32667b:         File \"/usr/local/lib/python2.7/dist-packages/toil/job.py\", line 1294, in _execute\r\nWARNING:toil.leader:e349cc50-91b4-4114-9118-7c90bb32667b:           returnValues = self.run(fileStore)\r\nWARNING:toil.leader:e349cc50-91b4-4114-9118-7c90bb32667b:         File \"/usr/local/lib/python2.7/dist-packages/toil/job.py\", line 1398, in run\r\nWARNING:toil.leader:e349cc50-91b4-4114-9118-7c90bb32667b:           userFunction = self._getUserFunction()\r\nWARNING:toil.leader:e349cc50-91b4-4114-9118-7c90bb32667b:         File \"/usr/local/lib/python2.7/dist-packages/toil/job.py\", line 1374, in _getUserFunction\r\nWARNING:toil.leader:e349cc50-91b4-4114-9118-7c90bb32667b:           return getattr(userFunctionModule, self.userFunctionName)\r\nWARNING:toil.leader:e349cc50-91b4-4114-9118-7c90bb32667b:       AttributeError: 'module' object has no attribute 'download_sample'\r\nWARNING:toil.leader:e349cc50-91b4-4114-9118-7c90bb32667b:       Exiting the worker because of a failed jobWrapper on host ip-172-31-33-13\r\nWARNING:toil.leader:e349cc50-91b4-4114-9118-7c90bb32667b:       ERROR:toil.worker:Exiting the worker because of a failed jobWrapper on host ip-172-31-33-13\r\n\r\n```"}}
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