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| author | Frederick Muriuki Muriithi | 2022-07-29 03:39:32 +0300 |
|---|---|---|
| committer | Frederick Muriuki Muriithi | 2022-07-29 03:53:49 +0300 |
| commit | e3622ac213ef6e1be8a38959f7c6ee082c112c95 (patch) | |
| tree | b8416a7fbceb8e228c253db6dace099702e4fd4f /gn3/computations | |
| parent | 921b5fe752e4a947595a86572592d5bbdeb16ead (diff) | |
| download | genenetwork3-e3622ac213ef6e1be8a38959f7c6ee082c112c95.tar.gz | |
Fix failing tests
* gn3/computations/correlations.py: rename function * mypy.ini: deactivate mypy error about missing imports * tests/integration/test_correlation.py: mock correct function * tests/unit/computations/test_correlation.py: test correct function
Diffstat (limited to 'gn3/computations')
| -rw-r--r-- | gn3/computations/correlations.py | 5 |
1 files changed, 3 insertions, 2 deletions
diff --git a/gn3/computations/correlations.py b/gn3/computations/correlations.py index ea1a862..5a9ce62 100644 --- a/gn3/computations/correlations.py +++ b/gn3/computations/correlations.py @@ -162,7 +162,8 @@ def fast_compute_all_sample_correlation(this_trait, corr_results, key=lambda trait_name: -abs(list(trait_name.values())[0]["corr_coefficient"])) -def __corr_compute__(trait_samples, target_trait, corr_method): +def compute_one_sample_correlation(trait_samples, target_trait, corr_method): + """Compute sample correlation against a single trait.""" trait_name = target_trait.get("trait_id") target_trait_data = target_trait["trait_sample_data"] try: @@ -200,7 +201,7 @@ def compute_all_sample_correlation(this_trait, ( corr for corr in pool.starmap( - __corr_compute__, + compute_one_sample_correlation, ((this_trait_samples, trait, corr_method) for trait in target_dataset)) if corr is not None), key=lambda trait_name: -abs( |