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feat: switch to cumulus-fhir-support's ndjson reading code #257

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merged 1 commit into from
Jul 2, 2024

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@mikix mikix commented Jul 1, 2024

We now load any ndjson files that cumulus-fhir-support says to.

Depends on smart-on-fhir/cumulus-fhir-support#3

Checklist

  • Consider if documentation (like in docs/) needs to be updated
  • Consider if tests should be added
  • Update template repo if there are changes to study configuration

@mikix mikix force-pushed the mikix/ndjson-parsing branch from 4a8411a to 9107941 Compare July 1, 2024 18:22
@mikix mikix changed the title feat: switch to cumulus-fhir-supprots's ndjson reading code feat: switch to cumulus-fhir-support's ndjson reading code Jul 1, 2024
Comment on lines +14 to +27
## Running tests

Tests can be run with `pytest` like you might expect,
but you'll first want to set up a fake `test` AWS profile.

1. Edit `~/.aws/credentials`
2. Add a block like:
```
[test]
aws_access_key_id = test
aws_secret_access_key = test
```
3. Then run `pytest`

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thank you for this

@mikix mikix force-pushed the mikix/ndjson-parsing branch from 9107941 to f91a729 Compare July 2, 2024 13:57
We now load any ndjson files that cumulus-fhir-support says to.
@mikix mikix force-pushed the mikix/ndjson-parsing branch from f91a729 to bb316ed Compare July 2, 2024 13:59
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github-actions bot commented Jul 2, 2024

☂️ Python Coverage

current status: ✅

Overall Coverage

Lines Covered Coverage Threshold Status
1928 1853 96% 90% 🟢

New Files

No new covered files...

Modified Files

File Coverage Status
cumulus_library/databases.py 96% 🟢
TOTAL 96% 🟢

updated for commit: bb316ed by action🐍

@mikix mikix merged commit 382979d into main Jul 2, 2024
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@mikix mikix deleted the mikix/ndjson-parsing branch July 2, 2024 14:26
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2 participants