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Merged
ialarmedalien merged 59 commits into from
Feb 23, 2026

Merge branch 'main' into develop

6eb97a6
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Merged

Merge develop => main #88

Merge branch 'main' into develop
6eb97a6
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Codecov / codecov/project failed Feb 23, 2026 in 1s

52.40% (-34.57%) compared to 7832989

View this Pull Request on Codecov

52.40% (-34.57%) compared to 7832989

Details

Codecov Report

❌ Patch coverage is 73.46774% with 329 lines in your changes missing coverage. Please review.
✅ Project coverage is 52.40%. Comparing base (7832989) to head (6eb97a6).
⚠️ Report is 24 commits behind head on main.

Files with missing lines Patch % Lines
src/cdm_data_loader_utils/utils/minio.py 15.88% 90 Missing ⚠️
src/cdm_data_loader_utils/utils/xml_utils.py 37.50% 60 Missing ⚠️
...cdm_data_loader_utils/pipelines/uniref_pipeline.py 0.00% 56 Missing ⚠️
...data_loader_utils/pipelines/uniprot_kb_pipeline.py 0.00% 54 Missing ⚠️
src/cdm_data_loader_utils/utils/spark_delta.py 82.41% 16 Missing ⚠️
...dm_data_loader_utils/parsers/uniprot/uniprot_kb.py 90.19% 15 Missing ⚠️
...cdm_data_loader_utils/parsers/uniprot/idmapping.py 79.54% 9 Missing ⚠️
src/cdm_data_loader_utils/utils/cdm_logger.py 79.06% 9 Missing ⚠️
.../cdm_data_loader_utils/parsers/uniprot/metalink.py 90.74% 5 Missing ⚠️
...rc/cdm_data_loader_utils/parsers/uniprot/uniref.py 91.66% 5 Missing ⚠️
... and 4 more
Additional details and impacted files

Impacted file tree graph

@@             Coverage Diff             @@
##             main      #88       +/-   ##
===========================================
- Coverage   86.97%   52.40%   -34.57%     
===========================================
  Files           9       65       +56     
  Lines         599     3238     +2639     
===========================================
+ Hits          521     1697     +1176     
- Misses         78     1541     +1463
Files with missing lines Coverage Δ
src/cdm_data_loader_utils/audit/checkpoint.py 100.00% <100.00%> (ø)
src/cdm_data_loader_utils/audit/metrics.py 100.00% <100.00%> (ø)
src/cdm_data_loader_utils/audit/rejects.py 100.00% <100.00%> (ø)
src/cdm_data_loader_utils/audit/run.py 100.00% <100.00%> (ø)
src/cdm_data_loader_utils/audit/schema.py 100.00% <100.00%> (ø)
src/cdm_data_loader_utils/core/constants.py 100.00% <100.00%> (ø)
src/cdm_data_loader_utils/core/pipeline_run.py 100.00% <100.00%> (ø)
src/cdm_data_loader_utils/parsers/checkm2.py 100.00% <100.00%> (ø)
...m_data_loader_utils/utils/download/async_client.py 100.00% <100.00%> (ø)
src/cdm_data_loader_utils/utils/download/core.py 100.00% <100.00%> (ø)
... and 18 more

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