{"action":"created","issue":{"url":"https://api.github.com/repos/lgatto/ProteomicsAnnotationHubData/issues/8","labels_url":"https://api.github.com/repos/lgatto/ProteomicsAnnotationHubData/issues/8/labels{/name}","comments_url":"https://api.github.com/repos/lgatto/ProteomicsAnnotationHubData/issues/8/comments","events_url":"https://api.github.com/repos/lgatto/ProteomicsAnnotationHubData/issues/8/events","html_url":"https://github.com/lgatto/ProteomicsAnnotationHubData/issues/8","id":98049625,"number":8,"title":"MzID file","user":{"login":"lgatto","id":384198,"avatar_url":"https://avatars.githubusercontent.com/u/384198?v=3","gravatar_id":"","url":"https://api.github.com/users/lgatto","html_url":"https://github.com/lgatto","followers_url":"https://api.github.com/users/lgatto/followers","following_url":"https://api.github.com/users/lgatto/following{/other_user}","gists_url":"https://api.github.com/users/lgatto/gists{/gist_id}","starred_url":"https://api.github.com/users/lgatto/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/lgatto/subscriptions","organizations_url":"https://api.github.com/users/lgatto/orgs","repos_url":"https://api.github.com/users/lgatto/repos","events_url":"https://api.github.com/users/lgatto/events{/privacy}","received_events_url":"https://api.github.com/users/lgatto/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"milestone":null,"comments":4,"created_at":"2015-07-29T23:21:59Z","updated_at":"2015-07-30T22:03:47Z","closed_at":null,"body":"- lives on the AH S3 server as an `mzID` file\r\n- read directly and served directly to the user as an `mzIDfile` object\r\n```r\r\nclass: AnnotationHubMetadata\r\nAnnotationHubRoot: /var/FastRWeb/web\r\nBiocVersion: 3.2\r\nCoordinate_1_based: TRUE\r\nDataProvider: PRIDE\r\nDerivedMd5: NA\r\nDescription: Four human TMT spliked-in proteins in an Erwinia\r\n  carotovora background. Expected reporter ion ratios: Erwinia peptides:\r\n  1:1:1:1:1:1; Enolase spike (sp|P00924|ENO1_YEAST): 10:5:2.5:1:2.5:10;\r\n  BSA spike (sp|P02769|ALBU_BOVIN): 1:2.5:5:10:5:1; PhosB spike\r\n  (sp|P00489|PYGM_RABIT): 2:2:2:2:1:1; Cytochrome C spike\r\n  (sp|P62894|CYC_BOVIN): 1:1:1:1:1:2.\r\nDispatchClass: mzRident\r\nGenome: NA\r\nLocation_Prefix: http://s3.amazonaws.com/annotationhub/\r\nMaintainer: Laurent Gatto <lg390@cam.ac.uk>\r\nNotes: NA\r\nPreparerClass: PXD000001MzidToMzRidentPreparer\r\nRDataClass: mzRident\r\nRDataDateAdded: 2015-07-30\r\nRDataPath:\r\n  pride/data/archive/2012/03/PXD000001/TMT_Erwinia_1uLSike_Top10HCD_isol2_45stepped_60min_01-20141210.mzid\r\nRecipe: NA\r\nSourceLastModifiedDate: NA\r\nSourceMd5: NA\r\nSourceSize: NA\r\nSourceType: mzid\r\nSourceUrl:\r\n  http://s3.amazonaws.com/annotationhub/pride/data/archive/2012/03/PXD000001/\r\nSourceVersion: 2015-07-29 23:58:20\r\nSpecies: Erwinia carotovora\r\nTags: Proteomics TMT6 LTQ Orbitrap Velos PMID:23692960\r\nTaxonomyId: 554\r\nTitle: PXD000001: MS-GF+ identiciation data\r\n```\r\n\r\nI think that the `SourceUrl` is missing the filename because it is not yet on the server, or just not accessible."},"comment":{"url":"https://api.github.com/repos/lgatto/ProteomicsAnnotationHubData/issues/comments/126505858","html_url":"https://github.com/lgatto/ProteomicsAnnotationHubData/issues/8#issuecomment-126505858","issue_url":"https://api.github.com/repos/lgatto/ProteomicsAnnotationHubData/issues/8","id":126505858,"user":{"login":"sonali-bioc","id":6373953,"avatar_url":"https://avatars.githubusercontent.com/u/6373953?v=3","gravatar_id":"","url":"https://api.github.com/users/sonali-bioc","html_url":"https://github.com/sonali-bioc","followers_url":"https://api.github.com/users/sonali-bioc/followers","following_url":"https://api.github.com/users/sonali-bioc/following{/other_user}","gists_url":"https://api.github.com/users/sonali-bioc/gists{/gist_id}","starred_url":"https://api.github.com/users/sonali-bioc/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/sonali-bioc/subscriptions","organizations_url":"https://api.github.com/users/sonali-bioc/orgs","repos_url":"https://api.github.com/users/sonali-bioc/repos","events_url":"https://api.github.com/users/sonali-bioc/events{/privacy}","received_events_url":"https://api.github.com/users/sonali-bioc/received_events","type":"User","site_admin":false},"created_at":"2015-07-30T22:03:47Z","updated_at":"2015-07-30T22:03:47Z","body":"Yes, the amazon machine cannot be accessed using .ftpFileInfo() - so you should hardcode this fileName and not run the .ftpFileInfo() function on any file on the amazon s3 machine.  "}}