{"action":"created","issue":{"url":"https://api.github.com/repos/monarch-initiative/dipper/issues/12","labels_url":"https://api.github.com/repos/monarch-initiative/dipper/issues/12/labels{/name}","comments_url":"https://api.github.com/repos/monarch-initiative/dipper/issues/12/comments","events_url":"https://api.github.com/repos/monarch-initiative/dipper/issues/12/events","html_url":"https://github.com/monarch-initiative/dipper/issues/12","id":49734027,"number":12,"title":"add data source zfin","user":{"login":"nlwashington","id":5124411,"avatar_url":"https://avatars.githubusercontent.com/u/5124411?v=3","gravatar_id":"","url":"https://api.github.com/users/nlwashington","html_url":"https://github.com/nlwashington","followers_url":"https://api.github.com/users/nlwashington/followers","following_url":"https://api.github.com/users/nlwashington/following{/other_user}","gists_url":"https://api.github.com/users/nlwashington/gists{/gist_id}","starred_url":"https://api.github.com/users/nlwashington/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/nlwashington/subscriptions","organizations_url":"https://api.github.com/users/nlwashington/orgs","repos_url":"https://api.github.com/users/nlwashington/repos","events_url":"https://api.github.com/users/nlwashington/events{/privacy}","received_events_url":"https://api.github.com/users/nlwashington/received_events","type":"User","site_admin":false},"labels":[{"url":"https://api.github.com/repos/monarch-initiative/dipper/labels/data","name":"data","color":"d4c5f9"}],"state":"open","locked":false,"assignee":{"login":"bryanlaraway","id":5770358,"avatar_url":"https://avatars.githubusercontent.com/u/5770358?v=3","gravatar_id":"","url":"https://api.github.com/users/bryanlaraway","html_url":"https://github.com/bryanlaraway","followers_url":"https://api.github.com/users/bryanlaraway/followers","following_url":"https://api.github.com/users/bryanlaraway/following{/other_user}","gists_url":"https://api.github.com/users/bryanlaraway/gists{/gist_id}","starred_url":"https://api.github.com/users/bryanlaraway/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/bryanlaraway/subscriptions","organizations_url":"https://api.github.com/users/bryanlaraway/orgs","repos_url":"https://api.github.com/users/bryanlaraway/repos","events_url":"https://api.github.com/users/bryanlaraway/events{/privacy}","received_events_url":"https://api.github.com/users/bryanlaraway/received_events","type":"User","site_admin":false},"milestone":{"url":"https://api.github.com/repos/monarch-initiative/dipper/milestones/2","html_url":"https://github.com/monarch-initiative/dipper/milestones/Flip%20switch%20from%20Disco-%3EDipper","labels_url":"https://api.github.com/repos/monarch-initiative/dipper/milestones/2/labels","id":924463,"number":2,"title":"Flip switch from Disco->Dipper","description":"We will make a complete switchover from the Disco scheduler to Dipper for the sources that drive our current website (http://monarchinitiative.org/sources):\r\nBiogrid, ClinVar, Coriell, CTD, FlyBase, HPO, IMPC, KEGG, MGI, MPD, NCBI (Gene, Pub2Gene), OMIA, OMIM, Orphanet, Panther, Wormbase, ZFIN.\r\nThe switchover will also include running this off of Jenkins.","creator":{"login":"nlwashington","id":5124411,"avatar_url":"https://avatars.githubusercontent.com/u/5124411?v=3","gravatar_id":"","url":"https://api.github.com/users/nlwashington","html_url":"https://github.com/nlwashington","followers_url":"https://api.github.com/users/nlwashington/followers","following_url":"https://api.github.com/users/nlwashington/following{/other_user}","gists_url":"https://api.github.com/users/nlwashington/gists{/gist_id}","starred_url":"https://api.github.com/users/nlwashington/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/nlwashington/subscriptions","organizations_url":"https://api.github.com/users/nlwashington/orgs","repos_url":"https://api.github.com/users/nlwashington/repos","events_url":"https://api.github.com/users/nlwashington/events{/privacy}","received_events_url":"https://api.github.com/users/nlwashington/received_events","type":"User","site_admin":false},"open_issues":35,"closed_issues":6,"state":"open","created_at":"2015-01-06T21:03:38Z","updated_at":"2015-04-02T23:50:35Z","due_on":"2015-05-01T07:00:00Z","closed_at":null},"comments":8,"created_at":"2014-11-21T18:52:40Z","updated_at":"2015-04-10T18:58:49Z","closed_at":null,"body":"add zfin geno-pheno data:\r\nhttp://www.zfin.org/downloads\r\n\r\nwe currently take in the:\r\nhttp://zfin.org/downloads/Morpholinos.txt\r\nhttp://zfin.org/Downloads/phenotype.txt\r\nhttp://zfin.org/Downloads/pheno_environment.txt\r\nhttp://zfin.org/Downloads/stage_ontology.txt\r\nhttp://zfin.org/Downloads/anatomy_item.txt\r\nhttp://zfin.org/Downloads/wildtype-expression.txt\r\nhttp://zfin.org/downloads/mappings.txt\r\nhttp://zfin.org/downloads/genotype_backgrounds.txt\r\nhttp://zfin.org/downloads/genbank.txt\r\nhttp://zfin.org/downloads/uniprot.txt\r\nhttp://zfin.org/downloads/gene.txt\r\nhttp://zfin.org/downloads/wildtypes.txt\r\nhttp://zfin.org/downloads/genotype_features.txt\r\nhttp://zfin.org/downloads/human_orthos.txt\r\nhttp://zfin.org/zf_info/dbase/cont.html\r\n\r\n"},"comment":{"url":"https://api.github.com/repos/monarch-initiative/dipper/issues/comments/91652026","html_url":"https://github.com/monarch-initiative/dipper/issues/12#issuecomment-91652026","issue_url":"https://api.github.com/repos/monarch-initiative/dipper/issues/12","id":91652026,"user":{"login":"bryanlaraway","id":5770358,"avatar_url":"https://avatars.githubusercontent.com/u/5770358?v=3","gravatar_id":"","url":"https://api.github.com/users/bryanlaraway","html_url":"https://github.com/bryanlaraway","followers_url":"https://api.github.com/users/bryanlaraway/followers","following_url":"https://api.github.com/users/bryanlaraway/following{/other_user}","gists_url":"https://api.github.com/users/bryanlaraway/gists{/gist_id}","starred_url":"https://api.github.com/users/bryanlaraway/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/bryanlaraway/subscriptions","organizations_url":"https://api.github.com/users/bryanlaraway/orgs","repos_url":"https://api.github.com/users/bryanlaraway/repos","events_url":"https://api.github.com/users/bryanlaraway/events{/privacy}","received_events_url":"https://api.github.com/users/bryanlaraway/received_events","type":"User","site_admin":false},"created_at":"2015-04-10T18:58:49Z","updated_at":"2015-04-10T18:58:49Z","body":"Here's a list of issues I've run into so far with this resource not included in #93:\r\n\r\n-The morpholino data includes the morpholino sequence, but no target sequence. Is it valid to compute the reverse complement of the morpholino sequence as the target sequence, or is the target sequence not the full reverse complement due to incomplete/imperfect binding between the morpholino and the potential target sequence?\r\n-Wildtypes as backgrounds: Should I add code to declare all wild types as backgrounds, or is a background only a background in relation to a mutant phenotype? Seems like the latter, so left that declaration out. It does result in a few of the wild types not being labeled as a background if there aren’t any mutant genotypes with that background (6 aren’t included so far, I believe).\r\n-Pseudogenes: Would these also be included as a class, similar to genes? Do we want to keep them or filter them out?"}}