def _run_helper(self, graph, protocol):
"""Helps run the protocol
:param pybel.BELGraph graph: A BEL graph
:param list[dict] protocol: The protocol to run, as JSON
:rtype: pybel.BELGraph
"""
result = graph
for entry in protocol:
meta_entry = entry.get('meta')
if meta_entry is None:
func = self.get_function(entry['function'])
result = func(result, *(entry.get('args', [])),
**(entry.get('kwargs', {})))
else:
networks = (self._run_helper(graph, subprotocol)
for subprotocol in entry['pipeline'])
if meta_entry == META_UNION:
result = union(networks)
elif meta_entry == META_INTERSECTION:
result = node_intersection(networks)
else:
raise ValueError(
'invalid meta-command: {}'.format(meta_entry))
return result
def test_intersection_trivial(self):
res = node_intersection([self.g])
self.assertEqual(self.g, res)
def test_node_intersection(self):
j = node_intersection([self.h, self.g], use_hash=True)
self.help_check_join(j)
self.help_check_initialize_h(self.h)
self.help_check_initialize_g(self.g)
def test_intersection_failure(self):
with self.assertRaises(ValueError):
node_intersection([])
def test_node_intersection(self):
j = node_intersection([self.h, self.g])
self._help_check_join(j)
self._help_check_initialize_h(self.h)
self._help_check_initialize_g(self.g)