{"action":"created","issue":{"url":"https://api.github.com/repos/rvaser/sword/issues/1","repository_url":"https://api.github.com/repos/rvaser/sword","labels_url":"https://api.github.com/repos/rvaser/sword/issues/1/labels{/name}","comments_url":"https://api.github.com/repos/rvaser/sword/issues/1/comments","events_url":"https://api.github.com/repos/rvaser/sword/issues/1/events","html_url":"https://github.com/rvaser/sword/issues/1","id":189536546,"number":1,"title":"Segmentation fault larger database","user":{"login":"raw937","id":11903656,"avatar_url":"https://avatars.githubusercontent.com/u/11903656?v=3","gravatar_id":"","url":"https://api.github.com/users/raw937","html_url":"https://github.com/raw937","followers_url":"https://api.github.com/users/raw937/followers","following_url":"https://api.github.com/users/raw937/following{/other_user}","gists_url":"https://api.github.com/users/raw937/gists{/gist_id}","starred_url":"https://api.github.com/users/raw937/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/raw937/subscriptions","organizations_url":"https://api.github.com/users/raw937/orgs","repos_url":"https://api.github.com/users/raw937/repos","events_url":"https://api.github.com/users/raw937/events{/privacy}","received_events_url":"https://api.github.com/users/raw937/received_events","type":"User","site_admin":false},"labels":[],"state":"closed","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":24,"created_at":"2016-11-15T23:22:47Z","updated_at":"2017-01-22T18:56:44Z","closed_at":"2016-11-16T14:43:14Z","body":"I tested a larger database\r\ncat eggnog4.proteins.all.faa | grep \">\" | wc -c\r\n307985246\r\n\r\nsword -i test_seq.fa -j eggnog4.proteins.all.faa -v 0.0000001 -t 8 -a 5 -c 307995246\r\n\r\n[database][search-werk]: 29.99180 s\r\n[database][search]: 78.24764 s\r\nUsing: lambda = 0.243, K = 0.024, H = 0.100\r\nSegmentation fault\r\n\r\n\r\nAny thoughts?"},"comment":{"url":"https://api.github.com/repos/rvaser/sword/issues/comments/274350691","html_url":"https://github.com/rvaser/sword/issues/1#issuecomment-274350691","issue_url":"https://api.github.com/repos/rvaser/sword/issues/1","id":274350691,"user":{"login":"rvaser","id":6094359,"avatar_url":"https://avatars.githubusercontent.com/u/6094359?v=3","gravatar_id":"","url":"https://api.github.com/users/rvaser","html_url":"https://github.com/rvaser","followers_url":"https://api.github.com/users/rvaser/followers","following_url":"https://api.github.com/users/rvaser/following{/other_user}","gists_url":"https://api.github.com/users/rvaser/gists{/gist_id}","starred_url":"https://api.github.com/users/rvaser/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/rvaser/subscriptions","organizations_url":"https://api.github.com/users/rvaser/orgs","repos_url":"https://api.github.com/users/rvaser/repos","events_url":"https://api.github.com/users/rvaser/events{/privacy}","received_events_url":"https://api.github.com/users/rvaser/received_events","type":"User","site_admin":false},"created_at":"2017-01-22T18:56:44Z","updated_at":"2017-01-22T18:56:44Z","body":"Hi Zohaib,\r\n\r\nmy reader filters out everything from a sequence which is not a character from the alphabet. If the resulting sequence is empty, you get the error from before:  Assertion `valid_data_length && \"no valid chars found\"'. So I preprocessed the database and removed such sequences.\r\n\r\nBest,\r\nRobert"}}
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