{"action":"created","issue":{"url":"https://api.github.com/repos/jhpoelen/fb-osmose-bridge/issues/122","repository_url":"https://api.github.com/repos/jhpoelen/fb-osmose-bridge","labels_url":"https://api.github.com/repos/jhpoelen/fb-osmose-bridge/issues/122/labels{/name}","comments_url":"https://api.github.com/repos/jhpoelen/fb-osmose-bridge/issues/122/comments","events_url":"https://api.github.com/repos/jhpoelen/fb-osmose-bridge/issues/122/events","html_url":"https://github.com/jhpoelen/fb-osmose-bridge/issues/122","id":240031498,"number":122,"title":"Avoiding redundancies as regards plankton groups","user":{"login":"agruss2","id":16559622,"avatar_url":"https://avatars1.githubusercontent.com/u/16559622?v=4","gravatar_id":"","url":"https://api.github.com/users/agruss2","html_url":"https://github.com/agruss2","followers_url":"https://api.github.com/users/agruss2/followers","following_url":"https://api.github.com/users/agruss2/following{/other_user}","gists_url":"https://api.github.com/users/agruss2/gists{/gist_id}","starred_url":"https://api.github.com/users/agruss2/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/agruss2/subscriptions","organizations_url":"https://api.github.com/users/agruss2/orgs","repos_url":"https://api.github.com/users/agruss2/repos","events_url":"https://api.github.com/users/agruss2/events{/privacy}","received_events_url":"https://api.github.com/users/agruss2/received_events","type":"User","site_admin":false},"labels":[{"id":415933408,"url":"https://api.github.com/repos/jhpoelen/fb-osmose-bridge/labels/UI%20High%20priority","name":"UI High priority","color":"006b75","default":false}],"state":"open","locked":false,"assignee":{"login":"Dengaloo","id":11561939,"avatar_url":"https://avatars3.githubusercontent.com/u/11561939?v=4","gravatar_id":"","url":"https://api.github.com/users/Dengaloo","html_url":"https://github.com/Dengaloo","followers_url":"https://api.github.com/users/Dengaloo/followers","following_url":"https://api.github.com/users/Dengaloo/following{/other_user}","gists_url":"https://api.github.com/users/Dengaloo/gists{/gist_id}","starred_url":"https://api.github.com/users/Dengaloo/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/Dengaloo/subscriptions","organizations_url":"https://api.github.com/users/Dengaloo/orgs","repos_url":"https://api.github.com/users/Dengaloo/repos","events_url":"https://api.github.com/users/Dengaloo/events{/privacy}","received_events_url":"https://api.github.com/users/Dengaloo/received_events","type":"User","site_admin":false},"assignees":[{"login":"Dengaloo","id":11561939,"avatar_url":"https://avatars3.githubusercontent.com/u/11561939?v=4","gravatar_id":"","url":"https://api.github.com/users/Dengaloo","html_url":"https://github.com/Dengaloo","followers_url":"https://api.github.com/users/Dengaloo/followers","following_url":"https://api.github.com/users/Dengaloo/following{/other_user}","gists_url":"https://api.github.com/users/Dengaloo/gists{/gist_id}","starred_url":"https://api.github.com/users/Dengaloo/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/Dengaloo/subscriptions","organizations_url":"https://api.github.com/users/Dengaloo/orgs","repos_url":"https://api.github.com/users/Dengaloo/repos","events_url":"https://api.github.com/users/Dengaloo/events{/privacy}","received_events_url":"https://api.github.com/users/Dengaloo/received_events","type":"User","site_admin":false},{"login":"FIN-JBarile","id":16014941,"avatar_url":"https://avatars0.githubusercontent.com/u/16014941?v=4","gravatar_id":"","url":"https://api.github.com/users/FIN-JBarile","html_url":"https://github.com/FIN-JBarile","followers_url":"https://api.github.com/users/FIN-JBarile/followers","following_url":"https://api.github.com/users/FIN-JBarile/following{/other_user}","gists_url":"https://api.github.com/users/FIN-JBarile/gists{/gist_id}","starred_url":"https://api.github.com/users/FIN-JBarile/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/FIN-JBarile/subscriptions","organizations_url":"https://api.github.com/users/FIN-JBarile/orgs","repos_url":"https://api.github.com/users/FIN-JBarile/repos","events_url":"https://api.github.com/users/FIN-JBarile/events{/privacy}","received_events_url":"https://api.github.com/users/FIN-JBarile/received_events","type":"User","site_admin":false},{"login":"FIN-casey","id":18322815,"avatar_url":"https://avatars0.githubusercontent.com/u/18322815?v=4","gravatar_id":"","url":"https://api.github.com/users/FIN-casey","html_url":"https://github.com/FIN-casey","followers_url":"https://api.github.com/users/FIN-casey/followers","following_url":"https://api.github.com/users/FIN-casey/following{/other_user}","gists_url":"https://api.github.com/users/FIN-casey/gists{/gist_id}","starred_url":"https://api.github.com/users/FIN-casey/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/FIN-casey/subscriptions","organizations_url":"https://api.github.com/users/FIN-casey/orgs","repos_url":"https://api.github.com/users/FIN-casey/repos","events_url":"https://api.github.com/users/FIN-casey/events{/privacy}","received_events_url":"https://api.github.com/users/FIN-casey/received_events","type":"User","site_admin":false}],"milestone":{"url":"https://api.github.com/repos/jhpoelen/fb-osmose-bridge/milestones/45","html_url":"https://github.com/jhpoelen/fb-osmose-bridge/milestone/45","labels_url":"https://api.github.com/repos/jhpoelen/fb-osmose-bridge/milestones/45/labels","id":2643034,"number":45,"title":"Before August, 6th 2017","description":null,"creator":{"login":"agruss2","id":16559622,"avatar_url":"https://avatars1.githubusercontent.com/u/16559622?v=4","gravatar_id":"","url":"https://api.github.com/users/agruss2","html_url":"https://github.com/agruss2","followers_url":"https://api.github.com/users/agruss2/followers","following_url":"https://api.github.com/users/agruss2/following{/other_user}","gists_url":"https://api.github.com/users/agruss2/gists{/gist_id}","starred_url":"https://api.github.com/users/agruss2/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/agruss2/subscriptions","organizations_url":"https://api.github.com/users/agruss2/orgs","repos_url":"https://api.github.com/users/agruss2/repos","events_url":"https://api.github.com/users/agruss2/events{/privacy}","received_events_url":"https://api.github.com/users/agruss2/received_events","type":"User","site_admin":false},"open_issues":7,"closed_issues":2,"state":"open","created_at":"2017-07-16T00:05:41Z","updated_at":"2017-07-29T23:18:50Z","due_on":null,"closed_at":null},"comments":4,"created_at":"2017-07-02T20:06:44Z","updated_at":"2017-08-05T00:59:53Z","closed_at":null,"body":"@FIN-casey @FIN-JBarile @Dengaloo\r\nI ran another test with the bridge between FishBase/SeaLifeBase and OSMOSE, where I queried parameters for an OSMOSE model for the Iceland Shelf/Sea ecosystem. I did not touch anything in Step 2, except that I defined the \"invertpelagicsm\" functional group as a \"background\" functional group. The \"invertpelagicsm\" functional group includes only one species: _Calanus finmarchicus_ (Maxillopoda); see:\r\nfunctional_groups.xlsx\r\nHowever, as you know, _Calanus finmarchicus_ belongs to the zooplankton. Like pretty much all the zooplankton species included in SeaLifeBase, _Calanus finmarchicus_ is a data-poor species and, therefore, the bridge between FishBase/SeaLifeBase and OSMOSE provides only NA's for this species.\r\nTherefore, I think that we should find a way to: (1) make the bridge between FishBase/SeaLifeBase and OSMOSE define only general \"phytoplankton\" and \"zooplankton\" background functional groups, as is presently the case; and (2) prevent the bridge from defining other phytoplankton and zooplankton groups/species in the table provided in Step 2.\r\n\r\nThis may be a little bit technical to implement.\r\n\r\nIs there a way to identify which of the numerous species included in SeaLifeBase belong to the phytoplankton or zooplankton?\r\nOr are we only able to determine the class, phylum, order, etc. to which the species that are included in SeaLifeBase belong?\r\n\r\nIn any case, it would be good to implement what I described above, so as to avoid defining redundant plankton groups for which the bridge between FishBase/SeaLifeBase and OSMOSE will only provide NA's."},"comment":{"url":"https://api.github.com/repos/jhpoelen/fb-osmose-bridge/issues/comments/320381821","html_url":"https://github.com/jhpoelen/fb-osmose-bridge/issues/122#issuecomment-320381821","issue_url":"https://api.github.com/repos/jhpoelen/fb-osmose-bridge/issues/122","id":320381821,"user":{"login":"FIN-casey","id":18322815,"avatar_url":"https://avatars0.githubusercontent.com/u/18322815?v=4","gravatar_id":"","url":"https://api.github.com/users/FIN-casey","html_url":"https://github.com/FIN-casey","followers_url":"https://api.github.com/users/FIN-casey/followers","following_url":"https://api.github.com/users/FIN-casey/following{/other_user}","gists_url":"https://api.github.com/users/FIN-casey/gists{/gist_id}","starred_url":"https://api.github.com/users/FIN-casey/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/FIN-casey/subscriptions","organizations_url":"https://api.github.com/users/FIN-casey/orgs","repos_url":"https://api.github.com/users/FIN-casey/repos","events_url":"https://api.github.com/users/FIN-casey/events{/privacy}","received_events_url":"https://api.github.com/users/FIN-casey/received_events","type":"User","site_admin":false},"created_at":"2017-08-05T00:59:53Z","updated_at":"2017-08-05T00:59:53Z","body":"@agruss2 @FIN-JBarile The datasets are now updated based on the datasets sent by @FIN-JBarile, wherein the zooplankton and phytoplankton species are not included. Those species should now not be shown in the other functional group, either by default populating of the table or by adding specific species or by adding class.\r\n\r\nTo test this changes, make sure to clear your browser cache."}}
{"actor":{"display_login":"FIN-casey"}}