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Description of what I changed

Resolves #1541

E2E test

TESTED:

Please replace this with a description of how you tested your PR beyond the
automated e2e/unit tests.

Checklist: I completed these to help reviewers :)

  • I have read and will follow the
    review process.

  • I am familiar with Google Style Guides for the language I have coded in.

    No? Please take some time and review
    Java and
    Python style guides.

  • My IDE is configured to follow the Google
    code styles.

    No? Unsure? ->
    configure your IDE.

  • I have added tests to cover my changes. (If you refactored existing
    code that was well tested you do not have to add tests)

  • I ran mvn clean package right before creating this pull request and
    added all formatting changes to my commit.

  • If I made any Python code changes, I ran black ., pylint . and
    pyright . right before creating this pull request and added all
    formatting changes to my commit.

  • All new and existing tests passed.

  • My pull request is based on the latest changes of the master branch.

    No? Unsure? -> execute command git pull --rebase upstream master

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codecov-commenter commented Dec 22, 2025

Codecov Report

❌ Patch coverage is 71.42857% with 10 lines in your changes missing coverage. Please review.
✅ Project coverage is 46.73%. Comparing base (547612d) to head (a1cad1c).

Files with missing lines Patch % Lines
...unsen/avro/converters/DefinitionToAvroVisitor.java 75.00% 6 Missing ⚠️
...ava/com/google/fhir/analytics/PipelineManager.java 50.00% 2 Missing ⚠️
...m/cerner/bunsen/avro/converters/NoOpConverter.java 0.00% 1 Missing ⚠️
...ava/com/google/fhir/analytics/DwhFilesManager.java 83.33% 0 Missing and 1 partial ⚠️
Additional details and impacted files
@@             Coverage Diff              @@
##             master    #1543      +/-   ##
============================================
+ Coverage     46.61%   46.73%   +0.11%     
- Complexity      678      684       +6     
============================================
  Files            90       90              
  Lines          5886     5889       +3     
  Branches        834      834              
============================================
+ Hits           2744     2752       +8     
+ Misses         2827     2822       -5     
  Partials        315      315              

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@ndegwamartin ndegwamartin marked this pull request as ready for review December 22, 2025 05:34
@ndegwamartin ndegwamartin requested a review from bashir2 December 22, 2025 05:34
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@bashir2 bashir2 left a comment

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Thanks @ndegwamartin for the changes; just a few minor suggestions/questions.

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Thanks @ndegwamartin please feel free to merge after addressing the remaining comments below.

- Reverts lazy logging for main.py
- Disables lazy logging check in pylint configuration
- Refactors get current time to use static helper method
- Adds unit tests for PipelineManager class
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/gcbrun

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Successfully merging this pull request may close these issues.

Enforce Quality Gates for Java (Error Prone/NullAway) and Python (Pylint/Pyright)

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