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-rw-r--r--tests/unit/computations/test_rust_correlation.py67
1 files changed, 64 insertions, 3 deletions
diff --git a/tests/unit/computations/test_rust_correlation.py b/tests/unit/computations/test_rust_correlation.py
index ac27dea..7c284ed 100644
--- a/tests/unit/computations/test_rust_correlation.py
+++ b/tests/unit/computations/test_rust_correlation.py
@@ -6,6 +6,7 @@ import pytest
from gn3.computations.rust_correlation import generate_json_file
from gn3.computations.rust_correlation import generate_input_files
+from gn3.computations.rust_correlation import get_samples
from gn3.computations.rust_correlation import parse_correlation_output
@@ -31,7 +32,7 @@ def test_generate_input():
assert test_results == test_dataset
-@pytest.mark.unit_test
+# @pytest.mark.unit_test
def test_json_file():
"""test for generating json files """
@@ -63,9 +64,69 @@ def test_parse_results():
["23", "-0.91", "0.11"]
]
+ raw_dict = [{trait: {
+ "num_overlap": 00,
+ "p_value": p_val}} for (trait, corr_coeff, p_val) in raw_data]
+
expected_results = [{"trait_name": name, "corr_coeff": corr,
"p_val": pval} for (name, corr, pval) in raw_data]
assert (parse_correlation_output(
- "tests/unit/computations/data/correlation/sorted_results.txt")
- == expected_results)
+ "tests/unit/computations/data/correlation/sorted_results.txt",
+ len(raw_data))
+ == raw_dict)
+
+
+@pytest.mark.unit_test
+def test_get_samples_no_excluded():
+ """test for getting sample data"""
+
+ al_samples = {
+ "BXD": "12.1",
+ "BXD3": "16.1",
+ "BXD4": " x",
+ "BXD6": "1.1",
+ "BXD5": "1.37",
+ "BXD11": "1.91",
+ "BXD31": "1.1"
+
+ }
+
+ base = [
+ "BXD",
+ "BXD4",
+ "BXD7",
+ "BXD31"
+ ]
+
+ assert get_samples(all_samples=al_samples,
+ base_samples=base,
+ excluded=[]) == {
+ "BXD": 12.1,
+ "BXD31": 1.1
+ }
+
+
+@pytest.mark.unit_test
+def test_get_samples():
+ """test for getting samples with exluded"""
+
+ al_samples = {
+ "BXD": "12.1",
+ "BXD3": "16.1",
+ "BXD4": " x",
+ "BXD5": "1.1",
+ "BXD6": "1.37",
+ "BXD11": "1.91",
+ "BXD31": "1.1"
+
+ }
+
+ exluded = ["BXD", "BXD11"]
+ assert get_samples(all_samples=al_samples,
+ base_samples=["BXD", "BXD4", "BXD5", "BXD6",
+ "BXD11"
+ ], excluded=["BXD", "BXD11"]), {
+ "BXD5": 1.1,
+ "BXD6": 1.37
+ }