{"action":"created","issue":{"url":"https://api.github.com/repos/jts/sga/issues/125","repository_url":"https://api.github.com/repos/jts/sga","labels_url":"https://api.github.com/repos/jts/sga/issues/125/labels{/name}","comments_url":"https://api.github.com/repos/jts/sga/issues/125/comments","events_url":"https://api.github.com/repos/jts/sga/issues/125/events","html_url":"https://github.com/jts/sga/issues/125","id":168439350,"number":125,"title":"Assertion `expectedOverlap < (int)contigString.length()' failed","user":{"login":"sjackman","id":291551,"avatar_url":"https://avatars.githubusercontent.com/u/291551?v=3","gravatar_id":"","url":"https://api.github.com/users/sjackman","html_url":"https://github.com/sjackman","followers_url":"https://api.github.com/users/sjackman/followers","following_url":"https://api.github.com/users/sjackman/following{/other_user}","gists_url":"https://api.github.com/users/sjackman/gists{/gist_id}","starred_url":"https://api.github.com/users/sjackman/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/sjackman/subscriptions","organizations_url":"https://api.github.com/users/sjackman/orgs","repos_url":"https://api.github.com/users/sjackman/repos","events_url":"https://api.github.com/users/sjackman/events{/privacy}","received_events_url":"https://api.github.com/users/sjackman/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":11,"created_at":"2016-07-30T00:47:33Z","updated_at":"2016-11-02T00:20:52Z","closed_at":null,"body":"Any suggestions?\n\n```\nsga scaffold2fasta -m 500 --write-unplaced --use-overlap -o hsapiens-scaffolds.fa -a hsapiens-graph.asqg.gz hsapiens.scaf\nGraph best: 0\nGraph unique: 1\nFind overlaps: 4\nDeleted edges for 0 super repetitive vertices\nWarning: removed 2900 duplicate edges\nsga: ScaffoldRecord.cpp:317: bool ScaffoldRecord::introduceGap(int, const string&, const ScaffoldLink&, std::__cxx11::string&) const: Assertion `expectedOverlap < (int)contigString.length()' failed.\nVertices: 6703921 Edges: 28309816 Islands: 136547 Tips: 625936 Monobranch: 3553099 Dibranch: 1249436 Simple: 5058208\n```\n"},"comment":{"url":"https://api.github.com/repos/jts/sga/issues/comments/257738247","html_url":"https://github.com/jts/sga/issues/125#issuecomment-257738247","issue_url":"https://api.github.com/repos/jts/sga/issues/125","id":257738247,"user":{"login":"sjackman","id":291551,"avatar_url":"https://avatars.githubusercontent.com/u/291551?v=3","gravatar_id":"","url":"https://api.github.com/users/sjackman","html_url":"https://github.com/sjackman","followers_url":"https://api.github.com/users/sjackman/followers","following_url":"https://api.github.com/users/sjackman/following{/other_user}","gists_url":"https://api.github.com/users/sjackman/gists{/gist_id}","starred_url":"https://api.github.com/users/sjackman/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/sjackman/subscriptions","organizations_url":"https://api.github.com/users/sjackman/orgs","repos_url":"https://api.github.com/users/sjackman/repos","events_url":"https://api.github.com/users/sjackman/events{/privacy}","received_events_url":"https://api.github.com/users/sjackman/received_events","type":"User","site_admin":false},"created_at":"2016-11-02T00:20:51Z","updated_at":"2016-11-02T00:20:51Z","body":"Is the `.scaf` file the final list of which contigs go in which scaffolds with one scaffold per line, or is it a list of distance estimates that still need to be merged into larger scaffolds?"}}
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