def test_GO_relation_1():
relation = GO.GO_relation({'id': ['rel'], 'name': ['relation']})
assert relation.id == 'rel'
assert relation.name == 'relation'
assert relation.is_transitive == False
assert relation.others == {}
assert str(relation) == '<rel>'
def test_GO_relation_5():
bp = GO.GO_category({
'id': ['GO:0008150'],
'name': ['biological_process'],
'def': ['']
})
mp = GO.GO_category({
'id': ['GO:0008152'],
'name': ['metabolic process'],
'def': ['']
})
cp = GO.GO_category({
'id': ['GO:0009987'],
'name': ['cellular process'],
'def': ['']
})
m = GO.GO_category({
'id': ['GO:0032259'],
'name': ['methylation'],
'def': ['']
})
is_a = GO.GO_relation({
'id': ['is_a'],
'name': ['is_a'],
'is_transitive': [True]
})
is_a.add_pair(mp, bp)
is_a.add_pair(cp, bp)
is_a.add_pair(m, mp)
is_a.add_pair(bp, m) # Introduce a cycle for testing.
is_a_copy = is_a.copy()
assert is_a == is_a_copy
def test_GO_relation_4():
bp = GO.GO_category({
'id': ['GO:0008150'],
'name': ['biological_process'],
'def': ['']
})
mp = GO.GO_category({
'id': ['GO:0008152'],
'name': ['metabolic process'],
'def': ['']
})
cp = GO.GO_category({
'id': ['GO:0009987'],
'name': ['cellular process'],
'def': ['']
})
m = GO.GO_category({
'id': ['GO:0032259'],
'name': ['methylation'],
'def': ['']
})
is_a = GO.GO_relation({
'id': ['is_a'],
'name': ['is_a'],
'is_transitive': [True]
})
is_a.add_pair(mp, bp)
is_a.add_pair(cp, bp)
is_a.add_pair(m, mp)
is_a.add_pair(m, bp) # Because the relation is transitive.
assert (cp, bp) in is_a
assert (m, bp) in is_a
assert (m, mp) in is_a
assert (mp, bp) in is_a
assert not (bp, cp) in is_a
assert not (bp, m) in is_a
assert not (bp, mp) in is_a
assert not (cp, m) in is_a
assert not (cp, mp) in is_a
assert not (m, cp) in is_a
assert not (mp, cp) in is_a
assert not (mp, m) in is_a
assert is_a[bp] == set()
assert is_a[cp] == {bp}
assert is_a[m] == {bp, mp}
assert is_a[mp] == {bp}
assert sorted(is_a) == [(mp, bp), (cp, bp), (m, bp), (m, mp)]
