{"action":"created","issue":{"url":"https://api.github.com/repos/marbl/canu/issues/160","repository_url":"https://api.github.com/repos/marbl/canu","labels_url":"https://api.github.com/repos/marbl/canu/issues/160/labels{/name}","comments_url":"https://api.github.com/repos/marbl/canu/issues/160/comments","events_url":"https://api.github.com/repos/marbl/canu/issues/160/events","html_url":"https://github.com/marbl/canu/issues/160","id":159794945,"number":160,"title":"Recommendations for low coverage extremely large genome","user":{"login":"rhallPB","id":3695432,"avatar_url":"https://avatars.githubusercontent.com/u/3695432?v=3","gravatar_id":"","url":"https://api.github.com/users/rhallPB","html_url":"https://github.com/rhallPB","followers_url":"https://api.github.com/users/rhallPB/followers","following_url":"https://api.github.com/users/rhallPB/following{/other_user}","gists_url":"https://api.github.com/users/rhallPB/gists{/gist_id}","starred_url":"https://api.github.com/users/rhallPB/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/rhallPB/subscriptions","organizations_url":"https://api.github.com/users/rhallPB/orgs","repos_url":"https://api.github.com/users/rhallPB/repos","events_url":"https://api.github.com/users/rhallPB/events{/privacy}","received_events_url":"https://api.github.com/users/rhallPB/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"milestone":null,"comments":6,"created_at":"2016-06-11T21:31:54Z","updated_at":"2016-06-17T12:50:41Z","closed_at":null,"body":"Hi, \r\nCan you make any recommendations for parameter I may what to consider changing in order to assemble ~25x of data for a 15Gb repetitive genome. The cluster environment is comprised of 16, 48 core 512Gb machines. I would be grateful of any pointers, I don't have a lot of experience with canu.\r\nThanks,\r\nRichard.\r\n "},"comment":{"url":"https://api.github.com/repos/marbl/canu/issues/comments/226760547","html_url":"https://github.com/marbl/canu/issues/160#issuecomment-226760547","issue_url":"https://api.github.com/repos/marbl/canu/issues/160","id":226760547,"user":{"login":"rhallPB","id":3695432,"avatar_url":"https://avatars.githubusercontent.com/u/3695432?v=3","gravatar_id":"","url":"https://api.github.com/users/rhallPB","html_url":"https://github.com/rhallPB","followers_url":"https://api.github.com/users/rhallPB/followers","following_url":"https://api.github.com/users/rhallPB/following{/other_user}","gists_url":"https://api.github.com/users/rhallPB/gists{/gist_id}","starred_url":"https://api.github.com/users/rhallPB/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/rhallPB/subscriptions","organizations_url":"https://api.github.com/users/rhallPB/orgs","repos_url":"https://api.github.com/users/rhallPB/repos","events_url":"https://api.github.com/users/rhallPB/events{/privacy}","received_events_url":"https://api.github.com/users/rhallPB/received_events","type":"User","site_admin":false},"created_at":"2016-06-17T12:50:41Z","updated_at":"2016-06-17T12:50:41Z","body":"@brianwalenz \r\nulimit -a\r\n`core file size          (blocks, -c) 0\r\ndata seg size           (kbytes, -d) unlimited\r\nscheduling priority             (-e) 0\r\nfile size               (blocks, -f) unlimited\r\npending signals                 (-i) 773213\r\nmax locked memory       (kbytes, -l) unlimited\r\nmax memory size         (kbytes, -m) unlimited\r\nopen files                      (-n) 300000\r\npipe size            (512 bytes, -p) 8\r\nPOSIX message queues     (bytes, -q) 819200\r\nreal-time priority              (-r) 0\r\nstack size              (kbytes, -s) 8192\r\ncpu time               (seconds, -t) unlimited\r\nmax user processes              (-u) 300000\r\nvirtual memory          (kbytes, -v) unlimited\r\nfile locks                      (-x) unlimited`\r\n\r\nulimit -Hu\r\n`300000`\r\n\r\nulimit -Hn\r\n`300000`\r\n\r\n10's of Tb of disk space isn't a problem.\r\n\r\nCurrently trying to optimize the ovB and ovS jobs, even running very few jobs is heavily I/O limited.\r\n\r\n"}}
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