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authorFrederick Muriuki Muriithi2021-11-01 08:33:26 +0300
committerFrederick Muriuki Muriithi2021-11-01 08:33:26 +0300
commitb56341f9144623cc41bc815b337490ace04b2495 (patch)
treee568d94460585155d752bdf75fd7205699251bf2 /tests/unit/computations
parent37cf87e94a44ba2ab26a8e458e0c5a90fe5ecc7a (diff)
parent8f036415975d6e224e5e94277997329c0f1fa159 (diff)
downloadgenenetwork3-b56341f9144623cc41bc815b337490ace04b2495.tar.gz
Merge branch 'main' of github.com:genenetwork/genenetwork3 into partial-correlations
Diffstat (limited to 'tests/unit/computations')
-rw-r--r--tests/unit/computations/test_biweight.py21
-rw-r--r--tests/unit/computations/test_correlation.py11
2 files changed, 0 insertions, 32 deletions
diff --git a/tests/unit/computations/test_biweight.py b/tests/unit/computations/test_biweight.py
deleted file mode 100644
index ad404f1..0000000
--- a/tests/unit/computations/test_biweight.py
+++ /dev/null
@@ -1,21 +0,0 @@
-"""test for biweight script"""
-from unittest import TestCase
-from unittest import mock
-
-from gn3.computations.biweight import calculate_biweight_corr
-
-
-class TestBiweight(TestCase):
- """test class for biweight"""
-
- @mock.patch("gn3.computations.biweight.subprocess.check_output")
- def test_calculate_biweight_corr(self, mock_check_output):
- """test for calculate_biweight_corr func"""
- mock_check_output.return_value = "0.1 0.5"
- results = calculate_biweight_corr(command="Rscript",
- path_to_script="./r_script.R",
- trait_vals=[
- 1.2, 1.1, 1.9],
- target_vals=[1.9, 0.4, 1.1])
-
- self.assertEqual(results, (0.1, 0.5))
diff --git a/tests/unit/computations/test_correlation.py b/tests/unit/computations/test_correlation.py
index fc52ec1..96d9c6d 100644
--- a/tests/unit/computations/test_correlation.py
+++ b/tests/unit/computations/test_correlation.py
@@ -5,7 +5,6 @@ from unittest import mock
from collections import namedtuple
from gn3.computations.correlations import normalize_values
-from gn3.computations.correlations import do_bicor
from gn3.computations.correlations import compute_sample_r_correlation
from gn3.computations.correlations import compute_all_sample_correlation
from gn3.computations.correlations import filter_shared_sample_keys
@@ -98,16 +97,6 @@ class TestCorrelation(TestCase):
self.assertEqual(results, expected_results)
- @mock.patch("gn3.computations.correlations.calculate_biweight_corr")
- def test_bicor(self, mock_biweight):
- """Test for doing biweight mid correlation """
- mock_biweight.return_value = (1.0, 0.0)
-
- results = do_bicor(x_val=[1, 2, 3], y_val=[4, 5, 6])
-
- self.assertEqual(results, (1.0, 0.0)
- )
-
@mock.patch("gn3.computations.correlations.compute_corr_coeff_p_value")
@mock.patch("gn3.computations.correlations.normalize_values")
def test_compute_sample_r_correlation(self, norm_vals, compute_corr):