aboutsummaryrefslogtreecommitdiff
path: root/tests
diff options
context:
space:
mode:
authorAlexander Kabui2021-06-14 13:36:40 +0300
committerAlexander Kabui2021-06-14 13:36:40 +0300
commit57a6af689e85e5cbfe0a825d5b84ed9c451e6ad7 (patch)
treec151d405b40186d00d99a42aee715f441b25b6fc /tests
parent9d6af6049fa73c6aae4d224245d319e87bccbd6a (diff)
downloadgenenetwork3-57a6af689e85e5cbfe0a825d5b84ed9c451e6ad7.tar.gz
add biweight r script and tests
Diffstat (limited to 'tests')
-rw-r--r--tests/unit/computations/test_biweight.py21
-rw-r--r--tests/unit/computations/test_correlation.py6
2 files changed, 25 insertions, 2 deletions
diff --git a/tests/unit/computations/test_biweight.py b/tests/unit/computations/test_biweight.py
new file mode 100644
index 0000000..3045f78
--- /dev/null
+++ b/tests/unit/computations/test_biweight.py
@@ -0,0 +1,21 @@
+"""test for biweight script"""
+from unittest import TestCase
+from unittest import mock
+
+from gn3.computations.biweight import call_biweight_script
+
+
+class TestBiweight(TestCase):
+ """test class for biweight"""
+
+ @mock.patch("gn3.computations.biweight.subprocess.check_output")
+ def test_call_biweight_script(self, mock_check_output):
+ """test for call_biweight_script func"""
+ mock_check_output.return_value = "0.1 0.5"
+ results = call_biweight_script(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 5746adf..606f96d 100644
--- a/tests/unit/computations/test_correlation.py
+++ b/tests/unit/computations/test_correlation.py
@@ -98,12 +98,14 @@ class TestCorrelation(TestCase):
self.assertEqual(results, expected_results)
- def test_bicor(self):
+ @mock.patch("gn3.computations.correlations.call_biweight_script")
+ 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, (0.0, 0.0)
+ self.assertEqual(results, (1.0, 0.0)
)
@mock.patch("gn3.computations.correlations.compute_corr_coeff_p_value")