{"action":"opened","issue":{"url":"https://api.github.com/repos/CompEvol/beast2/issues/553","repository_url":"https://api.github.com/repos/CompEvol/beast2","labels_url":"https://api.github.com/repos/CompEvol/beast2/issues/553/labels{/name}","comments_url":"https://api.github.com/repos/CompEvol/beast2/issues/553/comments","events_url":"https://api.github.com/repos/CompEvol/beast2/issues/553/events","html_url":"https://github.com/CompEvol/beast2/issues/553","id":153924617,"number":553,"title":"TreeAnnotator from CLI","user":{"login":"rbouckaert","id":3612959,"avatar_url":"https://avatars.githubusercontent.com/u/3612959?v=3","gravatar_id":"","url":"https://api.github.com/users/rbouckaert","html_url":"https://github.com/rbouckaert","followers_url":"https://api.github.com/users/rbouckaert/followers","following_url":"https://api.github.com/users/rbouckaert/following{/other_user}","gists_url":"https://api.github.com/users/rbouckaert/gists{/gist_id}","starred_url":"https://api.github.com/users/rbouckaert/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/rbouckaert/subscriptions","organizations_url":"https://api.github.com/users/rbouckaert/orgs","repos_url":"https://api.github.com/users/rbouckaert/repos","events_url":"https://api.github.com/users/rbouckaert/events{/privacy}","received_events_url":"https://api.github.com/users/rbouckaert/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"milestone":null,"comments":0,"created_at":"2016-05-10T05:06:29Z","updated_at":"2016-05-10T05:06:29Z","closed_at":null,"body":"Using treeannotator x.trees > x.tree results in having messages from the AddOnManager, so the file starts with something lile\r\n\r\nLoading package BEAST v2.4.1\r\nLoading package BDSKY v1.3.1\r\nLoading package BEAST v2.4.1\r\nLoading package BEASTLabs v1.5.2\r\nLoading package bModelTest v0.3.1\r\n\r\ninstead of \r\n\r\n#NEXUS\r\n\r\nThis obviously confuses programs that read summary trees. To solve this, the AddOnManager should not print the messages to Log.info, but to Log.warning instead. \r\n"}}