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Bulk FHIR client #1776

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johngrimes opened this issue Jan 17, 2024 · 4 comments · May be fixed by #1781
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Bulk FHIR client #1776

johngrimes opened this issue Jan 17, 2024 · 4 comments · May be fixed by #1781
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@piotrszul
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new feature New feature or request

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johngrimes commented Jan 17, 2024 •
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It would be great if there was a bulk FHIR client implementation within Pathling.

This client would be accessible through the library API, so that you could configure and run it to retrieve a set of NDJSON files from a server and save them to a Hadoop-compatible file location.

The operation should gracefully handle all foreseeable error states from the server, and retry requests upon any transient errors.
@johngrimes johngrimes added the new feature New feature or request label Jan 17, 2024
@github-project-automation github-project-automation bot moved this to Backlog in Pathling Jan 17, 2024
@johngrimes johngrimes mentioned this issue Jan 17, 2024
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One consideration for the server export and import job: where do we keep the state that we would use to populate the since parameter?

@johngrimes johngrimes mentioned this issue Jan 29, 2024
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I have now moved the server component of this to #1778.

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Let's get an unauthenticated version of this working against the FHIR Bulk Downloader Sample App first, then we can enhance it with authentication.

@johngrimes johngrimes moved this from Backlog to In progress in Pathling Jan 29, 2024
@piotrszul piotrszul linked a pull request Feb 19, 2024 that will close this issue
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johngrimes commented Feb 26, 2024 •
edited by piotrszul
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Remaining tasks:

  • Authentication support
  • Python configuration parameters - surfacing remaining parameters from Java
  • Java documentation
  • Extra unit tests in Java
  • Support for all query parameters in Bulk Data Access spec
  • Logging over the FFI
  • R client
  • JSR 380 Validation for config (and optionally) FHIR beans.

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new feature New feature or request
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Pathling
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Implement FHIR Bulk Export client. aehrc/pathling
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