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Release Folders on HTAN Portal #608

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clarisse-lau opened this issue Mar 20, 2024 · 2 comments
Open

Release Folders on HTAN Portal #608

clarisse-lau opened this issue Mar 20, 2024 · 2 comments
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@clarisse-lau
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As discussed on 3/19 ops call, we'd like to start releasing data at the folder level. These can be treated in the same way as Synapse files

To enable testing of folder releases, I've added new htan-dcc.released.entities_v5_1 and htan-dcc.released.metadata_v5_1 tables to BigQuery, where the only change from v5_0 is the addition of a single new folder and manifest

This folder contains HTAPP MERFISH Accessory files, and is annotated at the folder level using the AccessoryManifest template. It would be great if the folder can be put under Assay = MERFISH on the portal so that it is displayed along with the other files in the dataset. The AccessoryManifest template contains an attribute called Data Type which specifies the assay type

Screenshot 2024-03-20 at 2 15 03 PM

@onursumer onursumer self-assigned this Mar 20, 2024
@onursumer
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@clarisse-lau Do we want to show these folders under the Files tab? A folder does not have a Filename. It has an Accessory Name instead, and currently we ignore any file without a filename. Some other column names are also quite different than the file column names. Looks like we will need to tweak things a little bit if we want to treat these folders just like any other file. We will probably want to list the name of the folder under the Filename column instead of introducing a new Accessory Name column, right?

@clarisse-lau
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Thanks for working on this @onursumer!
The AccessoryManifest template has been modified to include Dataset Name (instead of Accessory Name), which can be used to populate the Filename column. We've also added HTAN Parent Biospecimen ID to ensure at minimum the linkage to biospecimens.

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