{"action":"created","issue":{"url":"https://api.github.com/repos/Cibiv/IQ-TREE/issues/62","repository_url":"https://api.github.com/repos/Cibiv/IQ-TREE","labels_url":"https://api.github.com/repos/Cibiv/IQ-TREE/issues/62/labels{/name}","comments_url":"https://api.github.com/repos/Cibiv/IQ-TREE/issues/62/comments","events_url":"https://api.github.com/repos/Cibiv/IQ-TREE/issues/62/events","html_url":"https://github.com/Cibiv/IQ-TREE/issues/62","id":305891552,"number":62,"title":"Parallelise SH-aLRT test","user":{"login":"bqminh","id":14890963,"avatar_url":"https://avatars0.githubusercontent.com/u/14890963?v=4","gravatar_id":"","url":"https://api.github.com/users/bqminh","html_url":"https://github.com/bqminh","followers_url":"https://api.github.com/users/bqminh/followers","following_url":"https://api.github.com/users/bqminh/following{/other_user}","gists_url":"https://api.github.com/users/bqminh/gists{/gist_id}","starred_url":"https://api.github.com/users/bqminh/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/bqminh/subscriptions","organizations_url":"https://api.github.com/users/bqminh/orgs","repos_url":"https://api.github.com/users/bqminh/repos","events_url":"https://api.github.com/users/bqminh/events{/privacy}","received_events_url":"https://api.github.com/users/bqminh/received_events","type":"User","site_admin":false},"labels":[{"id":283163898,"url":"https://api.github.com/repos/Cibiv/IQ-TREE/labels/enhancement","name":"enhancement","color":"84b6eb","default":true}],"state":"closed","locked":false,"assignee":{"login":"bqminh","id":14890963,"avatar_url":"https://avatars0.githubusercontent.com/u/14890963?v=4","gravatar_id":"","url":"https://api.github.com/users/bqminh","html_url":"https://github.com/bqminh","followers_url":"https://api.github.com/users/bqminh/followers","following_url":"https://api.github.com/users/bqminh/following{/other_user}","gists_url":"https://api.github.com/users/bqminh/gists{/gist_id}","starred_url":"https://api.github.com/users/bqminh/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/bqminh/subscriptions","organizations_url":"https://api.github.com/users/bqminh/orgs","repos_url":"https://api.github.com/users/bqminh/repos","events_url":"https://api.github.com/users/bqminh/events{/privacy}","received_events_url":"https://api.github.com/users/bqminh/received_events","type":"User","site_admin":false},"assignees":[{"login":"bqminh","id":14890963,"avatar_url":"https://avatars0.githubusercontent.com/u/14890963?v=4","gravatar_id":"","url":"https://api.github.com/users/bqminh","html_url":"https://github.com/bqminh","followers_url":"https://api.github.com/users/bqminh/followers","following_url":"https://api.github.com/users/bqminh/following{/other_user}","gists_url":"https://api.github.com/users/bqminh/gists{/gist_id}","starred_url":"https://api.github.com/users/bqminh/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/bqminh/subscriptions","organizations_url":"https://api.github.com/users/bqminh/orgs","repos_url":"https://api.github.com/users/bqminh/repos","events_url":"https://api.github.com/users/bqminh/events{/privacy}","received_events_url":"https://api.github.com/users/bqminh/received_events","type":"User","site_admin":false}],"milestone":{"url":"https://api.github.com/repos/Cibiv/IQ-TREE/milestones/1","html_url":"https://github.com/Cibiv/IQ-TREE/milestone/1","labels_url":"https://api.github.com/repos/Cibiv/IQ-TREE/milestones/1/labels","id":1984231,"number":1,"title":"v1.6.0","description":null,"creator":{"login":"bqminh","id":14890963,"avatar_url":"https://avatars0.githubusercontent.com/u/14890963?v=4","gravatar_id":"","url":"https://api.github.com/users/bqminh","html_url":"https://github.com/bqminh","followers_url":"https://api.github.com/users/bqminh/followers","following_url":"https://api.github.com/users/bqminh/following{/other_user}","gists_url":"https://api.github.com/users/bqminh/gists{/gist_id}","starred_url":"https://api.github.com/users/bqminh/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/bqminh/subscriptions","organizations_url":"https://api.github.com/users/bqminh/orgs","repos_url":"https://api.github.com/users/bqminh/repos","events_url":"https://api.github.com/users/bqminh/events{/privacy}","received_events_url":"https://api.github.com/users/bqminh/received_events","type":"User","site_admin":false},"open_issues":9,"closed_issues":11,"state":"open","created_at":"2016-09-05T13:33:47Z","updated_at":"2018-03-17T12:30:44Z","due_on":null,"closed_at":null},"comments":0,"created_at":"2018-03-16T11:20:14Z","updated_at":"2018-03-17T12:30:44Z","closed_at":"2018-03-17T12:30:44Z","author_association":"OWNER","body":"https://groups.google.com/forum/#!topic/iqtree/Vp6H5Xua4MY\r\n\r\nThe SH-aLRT was not parallelized yet. Except that from time to time during this test, the log-likelihood of the NNI trees are computed and only this part is parallelized. Initially I did not think about parallelizing the whole SH-aLRT computation because this test is so quick. But as soon as you specify many replicates and the alignment has many sites, then this is becoming bottleneck. I guess this is your case and that’s why you observed this behavior."},"comment":{"url":"https://api.github.com/repos/Cibiv/IQ-TREE/issues/comments/373916590","html_url":"https://github.com/Cibiv/IQ-TREE/issues/62#issuecomment-373916590","issue_url":"https://api.github.com/repos/Cibiv/IQ-TREE/issues/62","id":373916590,"user":{"login":"bqminh","id":14890963,"avatar_url":"https://avatars0.githubusercontent.com/u/14890963?v=4","gravatar_id":"","url":"https://api.github.com/users/bqminh","html_url":"https://github.com/bqminh","followers_url":"https://api.github.com/users/bqminh/followers","following_url":"https://api.github.com/users/bqminh/following{/other_user}","gists_url":"https://api.github.com/users/bqminh/gists{/gist_id}","starred_url":"https://api.github.com/users/bqminh/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/bqminh/subscriptions","organizations_url":"https://api.github.com/users/bqminh/orgs","repos_url":"https://api.github.com/users/bqminh/repos","events_url":"https://api.github.com/users/bqminh/events{/privacy}","received_events_url":"https://api.github.com/users/bqminh/received_events","type":"User","site_admin":false},"created_at":"2018-03-17T12:30:44Z","updated_at":"2018-03-17T12:30:44Z","author_association":"OWNER","body":"DONE in v1.6.3"}}
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