{"action":"opened","issue":{"url":"https://api.github.com/repos/jujubix/simulfold/issues/3","repository_url":"https://api.github.com/repos/jujubix/simulfold","labels_url":"https://api.github.com/repos/jujubix/simulfold/issues/3/labels{/name}","comments_url":"https://api.github.com/repos/jujubix/simulfold/issues/3/comments","events_url":"https://api.github.com/repos/jujubix/simulfold/issues/3/events","html_url":"https://github.com/jujubix/simulfold/issues/3","id":323842793,"number":3,"title":"Seems to fail on example input.","user":{"login":"drwatsoncode","id":3693833,"avatar_url":"https://avatars0.githubusercontent.com/u/3693833?v=4","gravatar_id":"","url":"https://api.github.com/users/drwatsoncode","html_url":"https://github.com/drwatsoncode","followers_url":"https://api.github.com/users/drwatsoncode/followers","following_url":"https://api.github.com/users/drwatsoncode/following{/other_user}","gists_url":"https://api.github.com/users/drwatsoncode/gists{/gist_id}","starred_url":"https://api.github.com/users/drwatsoncode/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/drwatsoncode/subscriptions","organizations_url":"https://api.github.com/users/drwatsoncode/orgs","repos_url":"https://api.github.com/users/drwatsoncode/repos","events_url":"https://api.github.com/users/drwatsoncode/events{/privacy}","received_events_url":"https://api.github.com/users/drwatsoncode/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":0,"created_at":"2018-05-17T01:38:03Z","updated_at":"2018-05-17T01:38:03Z","closed_at":null,"author_association":"NONE","body":"I downloaded the git repository and compiled it with `javac -O *.java`\r\n(I'm using Oracle Java 1.8.0_144)\r\n\r\nI then ran the following command:\r\n`java SimulFold tRNA_low.in tRNA_low.dnd -S`\r\n(where the files are directly from the manuscript data in *simulfold.tar.bz2* from your website)\r\n\r\nWhen I run the command, the output is as shown below. (I get the same output for any other input I've tried).\r\n\r\n```\r\ntemperature: 1.0\r\nStructure Sampling on temperature[0]: ACCEPTED\r\nStructure Sampling on temperature[0]: ACCEPTED\r\nStructure Sampling on temperature[0]: REJECTED\r\nStructure Sampling on temperature[0]: REJECTED\r\nStructure Sampling on temperature[0]: REJECTED\r\nStructure Sampling on temperature[0]: REJECTED\r\nStructure Sampling on temperature[0]: REJECTED\r\nStructure Sampling on temperature[0]: REJECTED\r\nStructure Sampling on temperature[0]: ACCEPTED\r\nStructure Sampling on temperature[0]: REJECTED\r\nStructure Sampling on temperature[0]: ACCEPTED\r\nStructure Sampling on temperature[0]: REJECTED\r\nStructure Sampling on temperature[0]: REJECTED\r\nStructure Sampling on temperature[0]: REJECTED\r\nStructure Sampling on temperature[0]: REJECTED\r\nStructure Sampling on temperature[0]: REJECTED\r\nStructure Sampling on temperature[0]: REJECTED\r\nStructure Sampling on temperature[0]: REJECTED\r\nStructure Sampling on temperature[0]: REJECTED\r\nStructure Sampling on temperature[0]: REJECTED\r\nStructure Sampling on temperature[0]: REJECTED\r\nStructure Sampling on temperature[0]: REJECTED\r\nStructure Sampling on temperature[0]: REJECTED\r\nStructure Sampling on temperature[0]: ACCEPTED\r\nStructure Sampling on temperature[0]: REJECTED\r\nStructure Sampling on temperature[0]: REJECTED\r\n... (continues like this until I kill it)\r\n```\r\n\r\nAm I running the command incorrectly? Is there an argument I should be passing to set the temperature? Is my java version (Java 8) not supported? I am currently running this on Windows, but I will also try on linux."}}
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