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authorAlexander2022-06-15 22:52:08 +0300
committerBonfaceKilz2022-06-29 17:41:16 +0300
commit300867779357f3c2c74d3bbdc6a743ca37136d00 (patch)
tree2cabd6b757f6806480f7a9b8c6b1134c00cd2036
parente7347aca4c3cb02c5febb915f4fb1dd5cda46ec0 (diff)
downloadgenenetwork3-300867779357f3c2c74d3bbdc6a743ca37136d00.tar.gz
lint test file
-rw-r--r--tests/unit/computations/test_rust_correlation.py27
1 files changed, 10 insertions, 17 deletions
diff --git a/tests/unit/computations/test_rust_correlation.py b/tests/unit/computations/test_rust_correlation.py
index a503ee1..75f9e47 100644
--- a/tests/unit/computations/test_rust_correlation.py
+++ b/tests/unit/computations/test_rust_correlation.py
@@ -1,11 +1,11 @@
+"""gn3.computations.rust_correlation unittests"""
+
import json
import os
import pytest
-from gn3.computations.rust_correlation import CORRELATION_COMMAND
from gn3.computations.rust_correlation import generate_json_file
from gn3.computations.rust_correlation import generate_input_files
-from gn3.computations.rust_correlation import run_correlation
from gn3.computations.rust_correlation import parse_correlation_output
@@ -13,8 +13,6 @@ from gn3.computations.rust_correlation import parse_correlation_output
def test_run_correlation():
"""test calling rusts' correlation """
- pass
-
@pytest.mark.unit_test
def test_generate_input():
@@ -27,9 +25,9 @@ def test_generate_input():
]
- (tmpdir, tmp_file) = generate_input_files(test_dataset, output_dir="/tmp")
+ (_tmp_dir, tmp_file) = generate_input_files(test_dataset, output_dir="/tmp")
- with open(tmp_file, "r") as file_reader:
+ with open(tmp_file, "r", encoding="utf-8") as file_reader:
test_results = [line.rstrip() for line in file_reader]
os.remove(tmp_file)
@@ -39,6 +37,7 @@ def test_generate_input():
@pytest.mark.unit_test
def test_json_file():
+ """test for generating json files """
json_dict = {"tmp_dir": "/tmp/correlation",
@@ -49,7 +48,7 @@ def test_json_file():
"file_delimiter": ","}
tmp_file = generate_json_file(**json_dict)
- with open(tmp_file, "r+") as file_reader:
+ with open(tmp_file, "r+",encoding="utf-8") as file_reader:
results = json.load(file_reader)
assert results == {
@@ -60,15 +59,8 @@ def test_json_file():
@pytest.mark.unit_test
-def test_kwargs():
- def rt(**kwargs):
- return kwargs
-
- assert rt(**{"name": "tt", "age": 12}) == {"name": "tt", "age": 12}
-
-
-@pytest.mark.unit_test
def test_parse_results():
+ """test for parsing file results"""
raw_data = [
["63.62", "0.97", "0.00"],
@@ -81,5 +73,6 @@ def test_parse_results():
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
+ assert (parse_correlation_output(
+ "tests/unit/computations/data/correlation/sorted_results.txt")
+ == expected_results)