def test_valid_file(self):
"""Should not raise an exception when a valid bam file is used"""
try:
grapple.bam_to_fq(self._test_file)
except Exception as e:
self.fail(e)
def test_valid_file(self):
"""Should not raise an exception when a valid bam file is used"""
try:
grapple.bam_to_fq(self._test_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.bam_to_fq(self._test_file, prefix_id=None)
def test_bad_prefix(self):
"""Should raise an exception when a type that cannot be converted to a string is used as the prefix"""
with self.assertRaises(TypeError):
grapple.bam_to_fq(self._test_file, prefix_id=0)
def test_none_file(self):
"""Should raise an exception when None is given"""
with self.assertRaises(AttributeError):
grapple.bam_to_fq(None)
def test_no_file(self):
"""Should raise an exception when no file is given"""
with self.assertRaises(ValueError):
grapple.bam_to_fq('')
def test_absent_file(self):
"""Should raise an exception when the file does not exist"""
with self.assertRaises(CalledProcessError):
grapple.bam_to_fq('this_file_does_not_exist.bam')
def test_invalid_file(self):
"""Should raise an exception when the wrong type of file is used"""
with self.assertRaises(ValueError):
grapple.bam_to_fq(os.path.join('test_files', 'lambda_ref.fa'))
def test_none_prefix(self):
"""Should raise an exception when None is used as the prefix"""
with self.assertRaises(TypeError):
grapple.bam_to_fq(self._test_file, prefix_id=None)
def test_bad_prefix(self):
"""Should raise an exception when a type that cannot be converted to a string is used as the prefix"""
with self.assertRaises(TypeError):
grapple.bam_to_fq(self._test_file, prefix_id=0)
def test_none_file(self):
"""Should raise an exception when None is given"""
with self.assertRaises(AttributeError):
grapple.bam_to_fq(None)
def test_no_file(self):
"""Should raise an exception when no file is given"""
with self.assertRaises(ValueError):
grapple.bam_to_fq('')
def test_absent_file(self):
"""Should raise an exception when the file does not exist"""
with self.assertRaises(CalledProcessError):
grapple.bam_to_fq('this_file_does_not_exist.bam')
def test_invalid_file(self):
"""Should raise an exception when the wrong type of file is used"""
with self.assertRaises(ValueError):
grapple.bam_to_fq(os.path.join('test_files', 'lambda_ref.fa'))