def test_none_prefix(self):
"""Should raise an exception when None is used as the prefix"""
with self.assertRaises(TypeError):
grapple.read_alignment(self._test_file,
self._ref_file,
prefix_id=None)
def test_bad_prefix(self):
"""Should raise an exception when a type that cannot be converted to a string is given for the prefix"""
with self.assertRaises(TypeError):
grapple.read_alignment(self._test_file,
self._ref_file,
prefix_id=0)
def test_valid_files(self):
"""Should not raise an exception when valid files are given as input"""
try:
grapple.read_alignment(self._test_file, self._ref_file)
except Exception as e:
self.fail(e)
def test_valid_files(self):
"""Should not raise an exception when valid files are given as input"""
try:
grapple.read_alignment(self._test_file, self._ref_file)
except Exception as e:
self.fail(e)
def test_none_prefix(self):
"""Should raise an exception when None is used as the prefix"""
with self.assertRaises(TypeError):
grapple.read_alignment(self._test_file, self._ref_file, prefix_id=None)
def test_bad_prefix(self):
"""Should raise an exception when a type that cannot be converted to a string is given for the prefix"""
with self.assertRaises(TypeError):
grapple.read_alignment(self._test_file, self._ref_file, prefix_id=0)
def test_none_ref_file(self):
"""Should raise an exception when None is given as the reference file"""
with self.assertRaises(AttributeError):
grapple.read_alignment(self._test_file, None)
def test_absent_ref_file(self):
"""Should raise an exception when the reference file doesn't exist"""
with self.assertRaises(CalledProcessError):
grapple.read_alignment(self._test_file, 'this_file_does_not_exist.fa')
def test_invalid_ref_file(self):
"""Should raise an exception when the reference file is in the wrong format"""
with self.assertRaises(ValueError):
grapple.read_alignment(self._test_file, self._test_file)
def test_none_read_file(self):
"""Should raise an exception when None is passed as the read_file"""
with self.assertRaises(AttributeError):
grapple.read_alignment(None, self._ref_file)
def test_absent_read_file(self):
"""Should raise an exception when the read file is absent"""
with self.assertRaises(CalledProcessError):
grapple.read_alignment('this_file_does_not_exist.fq', self._ref_file)
def test_none_ref_file(self):
"""Should raise an exception when None is given as the reference file"""
with self.assertRaises(AttributeError):
grapple.read_alignment(self._test_file, None)
def test_absent_ref_file(self):
"""Should raise an exception when the reference file doesn't exist"""
with self.assertRaises(CalledProcessError):
grapple.read_alignment(self._test_file,
'this_file_does_not_exist.fa')
def test_invalid_ref_file(self):
"""Should raise an exception when the reference file is in the wrong format"""
with self.assertRaises(ValueError):
grapple.read_alignment(self._test_file, self._test_file)
def test_none_read_file(self):
"""Should raise an exception when None is passed as the read_file"""
with self.assertRaises(AttributeError):
grapple.read_alignment(None, self._ref_file)
def test_absent_read_file(self):
"""Should raise an exception when the read file is absent"""
with self.assertRaises(CalledProcessError):
grapple.read_alignment('this_file_does_not_exist.fq',
self._ref_file)