def test_indices(self):
def callback(mer1, mer2, val):
# This is just for prettiness. It won't fail the test.
self.assertEqual(
self.struct.contact_map.get_contact_value(mer1, mer2), val)
# This is ugly. Failing assertion inside a callback doesn't
# prevent it from returning to C. Unittest in such a case is
# unable to catch an exception and fail the test. We have to
# pass the failure to C, check for it, and pass it back to
# Python.
if self.struct.contact_map.get_contact_value(mer1,
mer2) != val:
return 1
else:
return 0
CBFUNC = ctypes.CFUNCTYPE(ctypes.c_int, ctypes.c_int, ctypes.c_int,
ctypes.c_int)
cs = cydesc.CStructure(self.struct)
ccm = cydesc.CContactMap(cs, self.struct.contact_map)
res = libcydesc_test.CContactMapTest_indices(
ctypes.byref(ccm), CBFUNC(callback))
self.assertEqual(res, 0)
def test_init(self):
cs = cydesc.CStructure(self.struct)
self.assertEqual(self.struct.name, cs.name)
self.assertEqual(cs.n_monomers, len(self.struct))
for m, cm in zip(self.struct, cs.monomers):
assert_monomers_equal(self, m, cm)
def renumber(seg):
return [list(self.struct)[i].ind for i in list(seg)]
sum_len = 0
for seg in cs.segs[0:cs.n_segs]:
start, end = seg
frag = self.struct[start:end]
sum_len += len(frag)
if seg.start != seg.end:
self.assertIsInstance(frag, structure.Segment)
self.assertEqual(len(self.struct), sum_len)
for s1, s2 in zip(cs.segs[0:cs.n_segs], cs.segs[1:cs.n_segs]):
end1 = s1.end
start2 = s2.start
frag = self.struct[end1:start2]
self.assertIsInstance(frag, structure.UserStructure)
repr(cs)
def structure(self, struct):
"""
Structure setter. Creates a corresponding C structure.
"""
# This method is called in __init__
# pylint: disable=W0201
self._structure = struct
self._c_structure = None if struct is None else cydesc.CStructure(struct)
def test_adjusted_number(self):
cs = cydesc.CStructure(self.struct)
for dummy in range(100):
start, end = sorted(
map(operator.attrgetter('ind'),
random.sample(list(self.struct), 2)))
res = libcydesc_test.CStructureTest_adjusted_number(
ctypes.byref(cs), start, end)
self.assertEqual(res, self.struct[start:end].adjusted_number())
def test_init(self):
cs = cydesc.CStructure(self.struct)
ccm = cydesc.CContactMap(cs, self.struct.contact_map)
n_contacts = sum(
map(len, self.struct.contact_map.contacts.values()))
self.assertEqual(ctypes.addressof(ccm.structure.contents),
ctypes.addressof(cs))
self.assertEqual(ccm.n_contacts, n_contacts)
visited = {}
for c in ccm.contacts[0:n_contacts]:
self.assertEqual(
c.val,
self.struct.contact_map.get_contact_value(c.mer1, c.mer2))
if (c.mer1, c.mer2) in visited:
self.fail("Contact duplicated")
visited[(c.mer1, c.mer2)] = 1
repr(c)
repr(ccm)
def test_del(self):
cs = cydesc.CStructure(self.struct)
ccm = cydesc.CContactMap(cs, self.struct.contact_map)
del ccm
def test_indices(self):
cs = cydesc.CStructure(self.struct)
res = libcydesc_test.CStructureTest_indices(ctypes.byref(cs))
self.assertEqual(res, 0)