def test_phenotype_IO(self):
'''Test basic functionalities of phenotype IO methods'''
p1 = phenotype.read(SMALL_JSON_PLATE, 'pm-json')
p2 = next(phenotype.parse(SMALL_CSV_PLATES, 'pm-csv'))
handle = StringIO()
c = phenotype.write([p1, p2], handle, 'pm-json')
self.assertEqual(c, 2)
handle.flush()
handle.seek(0)
# Now ready to read back from the handle...
try:
records = list(phenotype.parse(handle, 'pm-json'))
except ValueError as e:
# This is BAD. We can't read our own output.
# I want to see the output when called from the test harness,
# run_tests.py (which can be funny about new lines on Windows)
handle.seek(0)
raise ValueError("%s\n\n%s\n\n%s"
% (str(e), repr(handle.read()), repr(records)))
self.assertEqual(p1, records[0])
handle.close()
handle = StringIO()
self.assertRaises(TypeError, phenotype.write, p1, handle, 1)
self.assertRaises(ValueError, phenotype.write, p1, handle, 'PM-JSON')
self.assertRaises(ValueError, phenotype.write, p1, handle, 'pm-csv')
handle.close()
def test_phenotype_IO(self):
"""Test basic functionalities of phenotype IO methods."""
p1 = phenotype.read(SMALL_JSON_PLATE, "pm-json")
p2 = next(phenotype.parse(SMALL_CSV_PLATES, "pm-csv"))
handle = StringIO()
c = phenotype.write([p1, p2], handle, "pm-json")
self.assertEqual(c, 2)
handle.flush()
handle.seek(0)
# Now ready to read back from the handle...
try:
records = list(phenotype.parse(handle, "pm-json"))
except ValueError as e:
# This is BAD. We can't read our own output.
# I want to see the output when called from the test harness,
# run_tests.py (which can be funny about new lines on Windows)
handle.seek(0)
self.fail("%s\n\n%r\n\n%r" % (str(e), handle.read(), records))
self.assertEqual(p1, records[0])
handle.close()
handle = StringIO()
self.assertRaises(TypeError, phenotype.write, p1, handle, 1)
self.assertRaises(ValueError, phenotype.write, p1, handle, "PM-JSON")
self.assertRaises(ValueError, phenotype.write, p1, handle, "pm-csv")
handle.close()
