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"""
Unit tests for interface
"""
# System imports
import os
import time
import unittest
# Load imports
import airr
from airr.schema import ValidationError
# Paths
test_path = os.path.dirname(os.path.realpath(__file__))
data_path = os.path.join(test_path, 'data')
class TestInferface(unittest.TestCase):
def setUp(self):
print('-------> %s()' % self.id())
# Test data
self.data_good = os.path.join(data_path, 'good_data.tsv')
self.data_bad = os.path.join(data_path, 'bad_data.tsv')
self.rep_good = os.path.join(data_path, 'good_repertoire.airr.yaml')
self.rep_bad = os.path.join(data_path, 'bad_repertoire.airr.yaml')
# Expected output
self.shape_good = (9, 44)
self.shape_bad = (9, 44)
# Start timer
self.start = time.time()
def tearDown(self):
t = time.time() - self.start
print('<- %.3f %s()' % (t, self.id()))
# @unittest.skip('-> load(): skipped\n')
def test_load(self):
# Good data
result = airr.load_rearrangement(self.data_good)
self.assertTupleEqual(result.shape, self.shape_good, 'load(): good data failed')
# Bad data
result = airr.load_rearrangement(self.data_bad)
self.assertTupleEqual(result.shape, self.shape_bad, 'load(): bad data failed')
# @unittest.skip('-> repertoire_template(): skipped\n')
def test_repertoire_template(self):
try:
rep = airr.repertoire_template()
result = airr.schema.RepertoireSchema.validate_object(rep)
self.assertTrue(result, 'repertoire_template(): repertoire template failed validation')
except:
self.assertTrue(False, 'repertoire_template(): repertoire template failed validation')
# @unittest.skip('-> validate(): skipped\n')
def test_validate(self):
# Good data
try:
result = airr.validate_rearrangement(self.data_good)
self.assertTrue(result, 'validate(): good data failed')
except:
self.assertTrue(False, 'validate(): good data failed')
# Bad data
try:
result = airr.validate_rearrangement(self.data_bad)
self.assertFalse(result, 'validate(): bad data failed')
except Exception as inst:
print(type(inst))
raise inst
# @unittest.skip('-> load_repertoire(): skipped\n')
def test_load_repertoire(self):
# Good data
try:
data = airr.load_repertoire(self.rep_good, validate=True)
except:
self.assertTrue(False, 'load_repertoire(): good data failed')
# Bad data
try:
data = airr.load_repertoire(self.rep_bad, validate=True, debug=True)
self.assertFalse(True, 'load_repertoire(): bad data failed')
except ValidationError:
pass
except Exception as inst:
print(type(inst))
raise inst
if __name__ == '__main__':
unittest.main()
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