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users to supply a constraint tree topology (`-g` option) to guide tree search, such that the resulting tree obeys the constraint. A naive implementation will be released with version 1.5.0. \n\n```\niqtree -s alignment -g constraint_tree ...\n```\n\nTODOs (as of Sept 8, 2016):\n- Speed up the naive version, as it right now can be slow for large trees. This involves mainly two steps: the initial tree construction and the NNI moves.\n"},"comment":{"url":"https://api.github.com/repos/Cibiv/IQ-TREE/issues/comments/427752481","html_url":"https://github.com/Cibiv/IQ-TREE/issues/8#issuecomment-427752481","issue_url":"https://api.github.com/repos/Cibiv/IQ-TREE/issues/8","id":427752481,"node_id":"MDEyOklzc3VlQ29tbWVudDQyNzc1MjQ4MQ==","user":{"login":"OlgaChern","id":15927122,"node_id":"MDQ6VXNlcjE1OTI3MTIy","avatar_url":"https://avatars3.githubusercontent.com/u/15927122?v=4","gravatar_id":"","url":"https://api.github.com/users/OlgaChern","html_url":"https://github.com/OlgaChern","followers_url":"https://api.github.com/users/OlgaChern/followers","following_url":"https://api.github.com/users/OlgaChern/following{/other_user}","gists_url":"https://api.github.com/users/OlgaChern/gists{/gist_id}","starred_url":"https://api.github.com/users/OlgaChern/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/OlgaChern/subscriptions","organizations_url":"https://api.github.com/users/OlgaChern/orgs","repos_url":"https://api.github.com/users/OlgaChern/repos","events_url":"https://api.github.com/users/OlgaChern/events{/privacy}","received_events_url":"https://api.github.com/users/OlgaChern/received_events","type":"User","site_admin":false},"created_at":"2018-10-08T08:14:07Z","updated_at":"2018-10-08T08:14:07Z","author_association":"CONTRIBUTOR","body":"Hi Minh,\nsorry I failed to do this.. after I returned from maternity leave I still have a lot of issues both personal and work wise and cannot get things done.. I hope things will sort out with time. \n\ncheers,\nOlga\n\n\n\n> On 08.10.2018, at 08:22, Bui Quang Minh <notifications@github.com> wrote:\n> \n> DONE.\n> \n> —\n> You are receiving this because you were assigned.\n> Reply to this email directly, view it on GitHub <https://github.com/Cibiv/IQ-TREE/issues/8#issuecomment-427731398>, or mute the thread <https://github.com/notifications/unsubscribe-auth/APMHUqIJgiWzaAkDAMS9kjUyzvpLGlqFks5uiu8TgaJpZM4J37_D>.\n> \n\n"}}
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