{"action":"created","issue":{"url":"https://api.github.com/repos/ejmaginn/TransportCheckList/issues/14","repository_url":"https://api.github.com/repos/ejmaginn/TransportCheckList","labels_url":"https://api.github.com/repos/ejmaginn/TransportCheckList/issues/14/labels{/name}","comments_url":"https://api.github.com/repos/ejmaginn/TransportCheckList/issues/14/comments","events_url":"https://api.github.com/repos/ejmaginn/TransportCheckList/issues/14/events","html_url":"https://github.com/ejmaginn/TransportCheckList/issues/14","id":352581541,"node_id":"MDU6SXNzdWUzNTI1ODE1NDE=","number":14,"title":"LiveCoMS Review","user":{"login":"ramess101","id":23408516,"node_id":"MDQ6VXNlcjIzNDA4NTE2","avatar_url":"https://avatars3.githubusercontent.com/u/23408516?v=4","gravatar_id":"","url":"https://api.github.com/users/ramess101","html_url":"https://github.com/ramess101","followers_url":"https://api.github.com/users/ramess101/followers","following_url":"https://api.github.com/users/ramess101/following{/other_user}","gists_url":"https://api.github.com/users/ramess101/gists{/gist_id}","starred_url":"https://api.github.com/users/ramess101/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/ramess101/subscriptions","organizations_url":"https://api.github.com/users/ramess101/orgs","repos_url":"https://api.github.com/users/ramess101/repos","events_url":"https://api.github.com/users/ramess101/events{/privacy}","received_events_url":"https://api.github.com/users/ramess101/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":8,"created_at":"2018-08-21T14:57:56Z","updated_at":"2018-08-21T16:01:16Z","closed_at":null,"author_association":"COLLABORATOR","body":"@ejmaginn @drroe @jrelliottoh @dcarls0n \r\n\r\nThe reviewer comments are in. \r\n\r\nHere is the email LiveCoMS sent me (and maybe they sent it to some of you as well):\r\n\r\nDear Dr. Messerly,\r\nThank you for submitting your manuscript \"Best Practices for Computing Transport Properties 1. Self-Diffusivity and Viscosity from Equilibrium Molecular Dynamics v1\" to the Living Journal of Computational Molecular Science. The editorial team and a group of expert reviewers, including one student or postdoc reviewer, have assessed your submission and feel that it has potential for publication. We invite you to revise the paper and resubmit for further review.\r\nPlease see the attached reviewer comments for further details about necessary revisions.\r\nSome particular points to examine:\r\n•\tSome questions were raised about rationales for some recommendations by reviewers. Please make sure all recommendations have specific rationales clearly listed.\r\n•\tWhen possible, all references should have literature citations. One rationale discussed the GROMACS manual; ideally, a more direct primary citation should be used.\r\n•\tThe check lists for computing self-diffusivity/shear viscosity with the Einstein and Green-Kubo equilibrium approaches are identical, with the exception of some varying section numbers. It would almost certainly be clearer to consolidate the checklists, one per property, with alternate options for Einsten and Green-Kubo approaches.\r\n•\tIt would be extremely helpful to put somewhat of a more quantitative requirement on what \"middle\" of the simulation is, and how to recognize it. Even if the subject is an open area of research, at least having quantitative measures is important for implementability. \r\n•\tComments on the reviewer's need to use double precision for NVE vs. NVT (we can facilitate more information from the reviewer as necessary)\r\nSeveral other recommendations in addition to what is in the reviews:\r\n•\tIt would be better to make recommendations in active voice \"we recommend\" versus passive voice \"it is recommended\" in order to clarify which recommendations are coming directly from the authors of this article, rather than the existing literature. \r\n•\tD.M.Z. lists funding acknowledgements, but is not an author.\r\n•\tFor the list of extra sources near the beginning, the authors and titles should be provided in the lists, not just in the references (full details can be left in the references).\r\n•\tIs it possible to include records (text + headers of emails, perhaps?) of the permission on use of figures from other publishers, and the condidions, in the GitHub repository? This could avoid later questions about what the permissions were if the article were further shared.\r\nYour revised manuscript should be accompanied by detailed responses to the reviewers' comments and a summary of changes made to the manuscript. You should also include as an additional file a version that highlights changes in the manuscript. Suggestions for how to create such a version in LaTeX can be found in the author’s information on the LiveCoMS website. If there are formatting issues, we suggest downloading the newest template files, as they have recently been improved, which may fix some formatting concerns.\r\nWe ask that you submit the revised version of your manuscript within 4 weeks. After that point in time we will presume that you have withdrawn your submission. \r\nThanks again for your submission to LiveCoMS!\r\nPlease feel free to contact me with any questions.\r\nSincerely,\r\nMichael Shirts\r\nEditor, Living Journal of Computational Molecular Science\r\n"},"comment":{"url":"https://api.github.com/repos/ejmaginn/TransportCheckList/issues/comments/414727545","html_url":"https://github.com/ejmaginn/TransportCheckList/issues/14#issuecomment-414727545","issue_url":"https://api.github.com/repos/ejmaginn/TransportCheckList/issues/14","id":414727545,"node_id":"MDEyOklzc3VlQ29tbWVudDQxNDcyNzU0NQ==","user":{"login":"drroe","id":10144183,"node_id":"MDQ6VXNlcjEwMTQ0MTgz","avatar_url":"https://avatars2.githubusercontent.com/u/10144183?v=4","gravatar_id":"","url":"https://api.github.com/users/drroe","html_url":"https://github.com/drroe","followers_url":"https://api.github.com/users/drroe/followers","following_url":"https://api.github.com/users/drroe/following{/other_user}","gists_url":"https://api.github.com/users/drroe/gists{/gist_id}","starred_url":"https://api.github.com/users/drroe/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/drroe/subscriptions","organizations_url":"https://api.github.com/users/drroe/orgs","repos_url":"https://api.github.com/users/drroe/repos","events_url":"https://api.github.com/users/drroe/events{/privacy}","received_events_url":"https://api.github.com/users/drroe/received_events","type":"User","site_admin":false},"created_at":"2018-08-21T16:01:16Z","updated_at":"2018-08-21T16:01:16Z","author_association":"COLLABORATOR","body":"> Yes. We fixed this a few days after submitting.\r\n\r\nGot it - I thought it sounded familiar, just couldn't remember when the fix was implemented. "}}
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