{"action":"created","issue":{"url":"https://api.github.com/repos/shaunpwilkinson/insect/issues/2","repository_url":"https://api.github.com/repos/shaunpwilkinson/insect","labels_url":"https://api.github.com/repos/shaunpwilkinson/insect/issues/2/labels{/name}","comments_url":"https://api.github.com/repos/shaunpwilkinson/insect/issues/2/comments","events_url":"https://api.github.com/repos/shaunpwilkinson/insect/issues/2/events","html_url":"https://github.com/shaunpwilkinson/insect/issues/2","id":358420168,"node_id":"MDU6SXNzdWUzNTg0MjAxNjg=","number":2,"title":"memory efficency","user":{"login":"andzandz11","id":19622117,"node_id":"MDQ6VXNlcjE5NjIyMTE3","avatar_url":"https://avatars3.githubusercontent.com/u/19622117?v=4","gravatar_id":"","url":"https://api.github.com/users/andzandz11","html_url":"https://github.com/andzandz11","followers_url":"https://api.github.com/users/andzandz11/followers","following_url":"https://api.github.com/users/andzandz11/following{/other_user}","gists_url":"https://api.github.com/users/andzandz11/gists{/gist_id}","starred_url":"https://api.github.com/users/andzandz11/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/andzandz11/subscriptions","organizations_url":"https://api.github.com/users/andzandz11/orgs","repos_url":"https://api.github.com/users/andzandz11/repos","events_url":"https://api.github.com/users/andzandz11/events{/privacy}","received_events_url":"https://api.github.com/users/andzandz11/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":2,"created_at":"2018-09-09T22:44:19Z","updated_at":"2018-09-11T13:13:17Z","closed_at":null,"author_association":"NONE","body":"Hello,\r\nis it possible to optimize the memory efficency? I have a 60GB RAM server but the training failes because the RAM is full after the message \"Deriving top level model\" \"cannot allocate vector of size 4.9GB\". It's a plant ITS dataset. I used \"autodetect\" as core parameter.\r\n\r\n151000 sequences, mean length 600\r\n\r\nThanks!"},"comment":{"url":"https://api.github.com/repos/shaunpwilkinson/insect/issues/comments/420269543","html_url":"https://github.com/shaunpwilkinson/insect/issues/2#issuecomment-420269543","issue_url":"https://api.github.com/repos/shaunpwilkinson/insect/issues/2","id":420269543,"node_id":"MDEyOklzc3VlQ29tbWVudDQyMDI2OTU0Mw==","user":{"login":"shaunpwilkinson","id":10361217,"node_id":"MDQ6VXNlcjEwMzYxMjE3","avatar_url":"https://avatars0.githubusercontent.com/u/10361217?v=4","gravatar_id":"","url":"https://api.github.com/users/shaunpwilkinson","html_url":"https://github.com/shaunpwilkinson","followers_url":"https://api.github.com/users/shaunpwilkinson/followers","following_url":"https://api.github.com/users/shaunpwilkinson/following{/other_user}","gists_url":"https://api.github.com/users/shaunpwilkinson/gists{/gist_id}","starred_url":"https://api.github.com/users/shaunpwilkinson/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/shaunpwilkinson/subscriptions","organizations_url":"https://api.github.com/users/shaunpwilkinson/orgs","repos_url":"https://api.github.com/users/shaunpwilkinson/repos","events_url":"https://api.github.com/users/shaunpwilkinson/events{/privacy}","received_events_url":"https://api.github.com/users/shaunpwilkinson/received_events","type":"User","site_admin":false},"created_at":"2018-09-11T13:13:17Z","updated_at":"2018-09-11T13:13:17Z","author_association":"OWNER","body":"That's a new error message for me, I'm not sure what is causing that. Would you be open to sharing your training dataset so I could have a go at isolating the problem? If you create a public dropbox link to the file I could download it onto my server and take a look. \r\n\r\nAlso , I've done some more optimizing over the last couple of weeks, namely placing a few `gc()` and `rm()` calls in the alignment and HMM derivation functions which have helped a bit. Are you using the development version of the package? If not it might help to download the latest version of GitHub and try that.\r\nCheers,\r\nShaun     "}}
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