def test_is_n_glycan(self):
core = glycans['N-Linked Core']
tree = glycoct.loads(broad_n_glycan)
result = (subtree_search.subtree_of(core, tree))
self.assertTrue(result == 1)
tree = glycoct.loads(complex_glycan)
result = (subtree_search.subtree_of(core, tree, exact=False))
self.assertTrue(result == 1)
result = (subtree_search.subtree_of(core, tree, exact=True))
self.assertTrue(result == 1)
tree = glycoct.loads(branchy_glycan)
result = (subtree_search.subtree_of(core, tree, exact=False))
self.assertTrue(result is None)
def matches(self, other):
motif = self.structure()
target = other.structure()
ix = subtree_search.subtree_of(motif, target, exact=True)
if self.is_core_motif:
return ix == 1
else:
return ix is not None
def is_n_glycan(record):
'''
A predicate testing if the :title:`N-linked Glycan` core motif is present in `record.structure`.
Returns
-------
int:
0 if |False|, 1 if |True|. Sqlite doesn't have a dedicated |bool| data type.
See Also
--------
:func:`glypy.algorithms.subtree_search.subtree_of`
'''
return int(subtree_search.subtree_of(
n_glycan_core, record.structure, exact=False) == 1)
def test_subtree_inclusion(self):
core = glycans['N-Linked Core']
tree = glycoct.loads(broad_n_glycan)
self.assertTrue(subtree_search.subtree_of(core, tree))
self.assertTrue(subtree_search.subtree_of(tree, core) is None)
