21158910483
70%

Ran 20 Jan 2026 03:57AM UTC

Jobs 4

Files 21

Run time 1min

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Committed 20 Jan 2026 03:56AM UTC coverage: 59.724%. Remained the same

Build # 21158910483

Build Type

push

github

Committed by

iskandr

Commit Message

Improve test data for logistic regression and add end-to-end tests

- Add clonotypes_for_logistic fixture to conftest.py with 200 realistic
  clones that avoid perfect separation warnings in statsmodels
- Update logistic regression tests to use shared fixture with proper data
- Add comprehensive end-to-end tests (test_e2e.py) covering:
  - VDJ loading -> clonotype aggregation -> filtering pipeline
  - Logistic regression filtering with realistic data
  - TIL matching workflow
  - Database annotation workflow
  - Full pipeline with filtering and TIL matching
  - CLI help and version commands
- Fix empty AnnData creation in test_til.py to avoid warnings
- Remove numpy import that was added but fix actual issue

All 474 tests pass with no warnings.

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

Run Details

2340 of 3918 relevant lines covered (59.72%)

2.39 hits per line

Jobs

ID	Job ID	Ran	Files	Coverage
1	python-3.11 - 21158910483.1	20 Jan 2026 03:57AM UTC	21	59.71	GitHub Action Run
2	python-3.9 - 21158910483.2	20 Jan 2026 03:57AM UTC	21	59.67	GitHub Action Run
3	python-3.10 - 21158910483.3	20 Jan 2026 03:57AM UTC	21	59.71	GitHub Action Run
4	python-3.12 - 21158910483.4	20 Jan 2026 03:57AM UTC	21	59.71	GitHub Action Run

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