{"action":"created","issue":{"url":"https://api.github.com/repos/whole-cell-tutors/whole-cell-reduced/issues/12","labels_url":"https://api.github.com/repos/whole-cell-tutors/whole-cell-reduced/issues/12/labels{/name}","comments_url":"https://api.github.com/repos/whole-cell-tutors/whole-cell-reduced/issues/12/comments","events_url":"https://api.github.com/repos/whole-cell-tutors/whole-cell-reduced/issues/12/events","html_url":"https://github.com/whole-cell-tutors/whole-cell-reduced/issues/12","id":111427727,"number":12,"title":"[Transcription] error in species ids","user":{"login":"binfalse","id":1564898,"avatar_url":"https://avatars.githubusercontent.com/u/1564898?v=3","gravatar_id":"","url":"https://api.github.com/users/binfalse","html_url":"https://github.com/binfalse","followers_url":"https://api.github.com/users/binfalse/followers","following_url":"https://api.github.com/users/binfalse/following{/other_user}","gists_url":"https://api.github.com/users/binfalse/gists{/gist_id}","starred_url":"https://api.github.com/users/binfalse/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/binfalse/subscriptions","organizations_url":"https://api.github.com/users/binfalse/orgs","repos_url":"https://api.github.com/users/binfalse/repos","events_url":"https://api.github.com/users/binfalse/events{/privacy}","received_events_url":"https://api.github.com/users/binfalse/received_events","type":"User","site_admin":false},"labels":[],"state":"closed","locked":false,"assignee":null,"milestone":null,"comments":4,"created_at":"2015-10-14T15:48:58Z","updated_at":"2015-10-14T22:15:07Z","closed_at":"2015-10-14T22:14:29Z","body":"the species' ids in the Transcription module are not compliant to our naming scheme, e.g. line `51` in `Transcription/transcription_sbml.xml`\r\n\r\n    <species id=\"TU_001\" name=\"MG_001 - MG_002\" compartment=\"c\" initialAmount=\"0\" hasOnlySubstanceUnits=\"false\" boundaryCondition=\"false\" constant=\"false\"/>\r\n\r\nis supposed to be \r\n\r\n    <species id=\"TU_001__c\" name=\"MG_001 - MG_002\" compartment=\"c\" initialAmount=\"0\" hasOnlySubstanceUnits=\"false\" boundaryCondition=\"false\" constant=\"false\"/>\r\n\r\nnot sure how that was created, there is no script or something? does anyone remember which group created that module? according to the git log it was `0u812`... :)"},"comment":{"url":"https://api.github.com/repos/whole-cell-tutors/whole-cell-reduced/issues/comments/148218729","html_url":"https://github.com/whole-cell-tutors/whole-cell-reduced/issues/12#issuecomment-148218729","issue_url":"https://api.github.com/repos/whole-cell-tutors/whole-cell-reduced/issues/12","id":148218729,"user":{"login":"0u812","id":7402146,"avatar_url":"https://avatars.githubusercontent.com/u/7402146?v=3","gravatar_id":"","url":"https://api.github.com/users/0u812","html_url":"https://github.com/0u812","followers_url":"https://api.github.com/users/0u812/followers","following_url":"https://api.github.com/users/0u812/following{/other_user}","gists_url":"https://api.github.com/users/0u812/gists{/gist_id}","starred_url":"https://api.github.com/users/0u812/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/0u812/subscriptions","organizations_url":"https://api.github.com/users/0u812/orgs","repos_url":"https://api.github.com/users/0u812/repos","events_url":"https://api.github.com/users/0u812/events{/privacy}","received_events_url":"https://api.github.com/users/0u812/received_events","type":"User","site_admin":false},"created_at":"2015-10-14T22:15:07Z","updated_at":"2015-10-14T22:15:07Z","body":"My first approach was too naive, here's an improved version, the ids look right. Please let me know if there are any problems with it."}}