Storing and Organizing Data¶

Rough demo outline

1. Automatic ingest from a POSIX directory to Keep
   • Access to existing staging area (e.g., remote NFS share) is arranged ahead of time as an admin/setup task
   • Optional(?) User can manage staging areas hosted inside Arvados
   • Someone ("3rd-party") uploads some files to the staging area via SFTP or whatever
   • 3rd-party does an API call to {something - ingestor app? directly to arvados api endpoint?}. This might be a short bash script culminating in a curl command. In the API call, the 3rd-party provides a label (e.g., a sample ID) and a list of files, checksums, and an arbitrary "properties" hash containing whatever the 3rd-party wants.
   • Ingestor daemon reads the data from the staging area and writes it into Keep; creates one collection per API call made by uploader
   • In Workbench the imported Datasets appear as Collections in the designated project
   • After data has been copied into Keep, ingestor deletes the files from the staging area (this had better be configurable!).
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2. My data gets into the right project as specified by the uploader (API call)
   • How is the staging-area ↔ project mapping specified, and how/where is it encoded/stored?
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3. Subscribe to notifications (by email and/or Workbench dashboard): when files start/finish uploading; when files are shared with customer; when files are downloaded by third party
   • For now, use existing Logs table + automatic logging of create/update/delete operations
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4. Move/copy collections between projects (Project RX1234, or Customer X’s files), tag them in destination project with the appropriate string (e.g., sample ID) -- defaulting to existing tag used in source project (e.g., provided at time of upload).
   • UI for presenting Groups as Projects/Folders: create, view, rename, share, delete
   • UI for copying/moving objects between folders
   • How to avoid confusion about "is this one object in two places, or are there two objects?" Note GDocs has a bit of both, "My Drive" / "Shared with me" vs. regular folders
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5. “Anyone with this secret link can view/download” mode. Enable, disable, change magic link. Use cases: browser + “wget -r”.
   • Perhaps the secret in the secret link is an ApiClientAuthorization token, belonging to the person creating the link, scoped to a single project/collection
   • How do we implement "Anonymous user, not logged in"?
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6. See log/overview of who has accessed your shared data (incl. “anonymous user” if using secret-link-to-share); when shared/unshared; when each upload started/finished -- for a single project, and across all projects
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7. Pilot alternate Workbench dashboard view
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8. Use layout/theme from http://startbootstrap.com/templates/sb-admin/index.html
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