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"""End to end tests for auto_gpa.py """
__authors__ = ["Martha Brennich"]
__license__ = "MIT"
__date__ = "29/11/2023"
import unittest
import pathlib
import logging
from platform import system
from subprocess import run, PIPE, STDOUT
from os import linesep
from os.path import normpath
from freesas.test.utilstest import get_datafile
logger = logging.getLogger(__name__)
if system() == "Windows":
cormapy = "cormapy.exe"
else:
cormapy = "cormapy"
class TestCormap(unittest.TestCase):
"""End to end tests for free_bift"""
cwd = pathlib.Path.cwd()
bsa_filename = pathlib.Path(get_datafile("bsa_005_sub.dat"))
def test_1_input_file_results_no_correlation(self):
"""
Test that cormap does not list a correlation if only one file is provided.
"""
run_app = run(
[cormapy, normpath(str(self.bsa_filename))],
stdout=PIPE,
stderr=STDOUT,
check=True,
)
if system() == "Windows":
run_app_output_raw = str(run_app.stdout)[:-1].replace("\\\\", "\\")
run_app_output = [
line.replace("\\n", "").replace("\\r", "")
for line in run_app_output_raw.split("\\n")[:-1]
]
else:
run_app_output_raw = str(run_app.stdout, "utf-8")[:-1]
run_app_output = run_app_output_raw.split(linesep)[:-1]
self.assertEqual(
run_app.returncode, 0, msg="cormapy on BM29 BSA completed well"
)
corr_table_head_pos = [
line_number
for line_number, line in enumerate(run_app_output)
if "Pr(>C)" in line
][0]
self.assertEqual(
run_app_output[corr_table_head_pos + 1],
"",
msg="Correlation table is empty",
)
def test_correlation_of_file_with_itself_is_1(self):
"""
Test that the auto-correlation of a file is 1.
"""
run_app = run(
[
cormapy,
normpath(str(self.bsa_filename)),
normpath(str(self.bsa_filename)),
],
stdout=PIPE,
stderr=STDOUT,
check=True,
)
if system() == "Windows":
run_app_output_raw = str(run_app.stdout)[:-1].replace("\\\\", "\\")
run_app_output = [
line.replace("\\n", "").replace("\\r", "")
for line in run_app_output_raw.split("\\n")[:-1]
]
else:
run_app_output_raw = str(run_app.stdout, "utf-8")[:-1]
run_app_output = run_app_output_raw.split(linesep)[:-1]
self.assertEqual(
run_app.returncode,
0,
msg="auto-correlation cormapy on BM29 BSA completed well",
)
corr_table_head_pos = [
line_number
for line_number, line in enumerate(run_app_output)
if "Pr(>C)" in line
][0]
self.assertEqual(
run_app_output[corr_table_head_pos + 1].split(),
[
"1",
"vs.",
"2",
"0",
"1.000000",
],
msg="Auto-correaltion is 1",
)
def suite():
"""Build test suite for free_bift"""
test_suite = unittest.TestSuite()
test_suite.addTest(TestCormap("test_1_input_file_results_no_correlation"))
test_suite.addTest(TestCormap("test_correlation_of_file_with_itself_is_1"))
return test_suite
if __name__ == "__main__":
runner = unittest.TextTestRunner()
runner.run(suite())
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