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Integrate dsub #195

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jhiemstrawisc
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Opening this PR in draft mode for now while @nisthapanda work through collaborating on documentation updates and other testing.

nisthapanda and others added 30 commits September 26, 2023 11:09
Merge Reed Comp Bio SPRAS master branch
…mporary fix to use dsub as framework with oi1, change to gcloud storage cp for larger file transfers
…dsub file paths are handled in container command
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agitter commented Nov 22, 2024

Some additional context: we started using dsub for All of Us

Within the Researcher Workbench, the Google Cloud Life Sciences API is the executor of dsub tasks.

However

Cloud Life Sciences is deprecated and will no longer be available on Google Cloud after July 8, 2025.

It's not yet clear what All of Us will do to support migration. I would still like to proceed with merging in this code though, but we may be okay keeping documentation light if our use case is already deprecated.

See also #130.

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