{"action":"created","issue":{"url":"https://api.github.com/repos/cmu-phil/tetrad/issues/267","repository_url":"https://api.github.com/repos/cmu-phil/tetrad","labels_url":"https://api.github.com/repos/cmu-phil/tetrad/issues/267/labels{/name}","comments_url":"https://api.github.com/repos/cmu-phil/tetrad/issues/267/comments","events_url":"https://api.github.com/repos/cmu-phil/tetrad/issues/267/events","html_url":"https://github.com/cmu-phil/tetrad/issues/267","id":170670783,"number":267,"title":"parallelization doesn't seem to work properly ","user":{"login":"tzcoolman","id":1256961,"avatar_url":"https://avatars.githubusercontent.com/u/1256961?v=3","gravatar_id":"","url":"https://api.github.com/users/tzcoolman","html_url":"https://github.com/tzcoolman","followers_url":"https://api.github.com/users/tzcoolman/followers","following_url":"https://api.github.com/users/tzcoolman/following{/other_user}","gists_url":"https://api.github.com/users/tzcoolman/gists{/gist_id}","starred_url":"https://api.github.com/users/tzcoolman/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/tzcoolman/subscriptions","organizations_url":"https://api.github.com/users/tzcoolman/orgs","repos_url":"https://api.github.com/users/tzcoolman/repos","events_url":"https://api.github.com/users/tzcoolman/events{/privacy}","received_events_url":"https://api.github.com/users/tzcoolman/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":2,"created_at":"2016-08-11T15:13:39Z","updated_at":"2016-08-19T17:15:28Z","closed_at":null,"body":"Hi Joe, \r\n\r\nThis is Enze from CCD summer short course 2016. We've been using causal-cmd to general gene regulatory network with our expression data. But currently we are having trouble of generating results.  Our dataset is a 100*15000 matrix with continuous numbers. And currently we cannot get results in 72 hrs (the program stopped due to our job runtime limits). And when we run it again, by monitoring the process with top command, it seems that most of the time only one core is involved in the whole process even though we clearly specified \"--thread 16\". Does it sound normal?\r\n\r\nPS: Here is parameters info in the head of the result file:\r\n\r\nRuntime Parameters:\r\nverbose = true\r\nnumber of threads = 16\r\n\r\nDataset:\r\nfile = test.input\r\ndelimiter = tab\r\ncases read in = 14206\r\nvariables read in = 107\r\n\r\nFGS Parameters:\r\npenalty discount = 3.000000\r\ndepth = -1\r\n\r\nRun Options:\r\nheuristic speedup = true\r\nignore linear dependence = false\r\n\r\nData Validations:\r\nensure variable names are unique = true\r\nensure variables have non-zero variance = true\r\n\r\nRegards\r\nEnze"},"comment":{"url":"https://api.github.com/repos/cmu-phil/tetrad/issues/comments/241077932","html_url":"https://github.com/cmu-phil/tetrad/issues/267#issuecomment-241077932","issue_url":"https://api.github.com/repos/cmu-phil/tetrad/issues/267","id":241077932,"user":{"login":"jdramsey","id":9853255,"avatar_url":"https://avatars.githubusercontent.com/u/9853255?v=3","gravatar_id":"","url":"https://api.github.com/users/jdramsey","html_url":"https://github.com/jdramsey","followers_url":"https://api.github.com/users/jdramsey/followers","following_url":"https://api.github.com/users/jdramsey/following{/other_user}","gists_url":"https://api.github.com/users/jdramsey/gists{/gist_id}","starred_url":"https://api.github.com/users/jdramsey/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/jdramsey/subscriptions","organizations_url":"https://api.github.com/users/jdramsey/orgs","repos_url":"https://api.github.com/users/jdramsey/repos","events_url":"https://api.github.com/users/jdramsey/events{/privacy}","received_events_url":"https://api.github.com/users/jdramsey/received_events","type":"User","site_admin":false},"created_at":"2016-08-19T17:15:28Z","updated_at":"2016-08-19T17:15:28Z","body":"I'm going to close this to push it out of the list for the time being. If you're still having trouble please reopen it and add some comments."}}
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