def test_get_node_labels_by_gene_id(self):
con = mock_DatabaseConnector()
con.insert_many(
"genes",
[
{"head": 1, "tail": 2},
{"head": 1, "tail": 3},
{"head": 3, "tail": 2},
{"head": 1, "tail": 4},
{"head": 4, "tail": 3},
{"head": 5, "tail": 2}
]
)
gene_repo = GeneRepository(con)
edge = gene_repo.get_node_labels_by_gene_id(0)
self.assertTupleEqual(
edge,
(1, 2),
"GeneRepository didn't find the appropriate endpoints for gene id."
)
edge = gene_repo.get_node_labels_by_gene_id(4)
self.assertTupleEqual(
edge,
(4, 3),
"GeneRepository didn't find the appropriate endpoints for gene id."
)
def test_get_next_node_label(self):
con = mock_DatabaseConnector()
rep = GeneRepository(con)
generated_labels = []
for i in range(100):
generated_labels.append(
rep.get_next_node_label()
)
self.assertListEqual(
generated_labels,
list(range(100)),
"The GeneRepository didn't generate the appropriate node labels."
)
def test_get_gene_id_for_endpoints(self):
con = mock_DatabaseConnector()
con.insert_many(
"genes",
[
{"head": 1, "tail": 2},
{"head": 1, "tail": 3},
{"head": 3, "tail": 2},
{"head": 1, "tail": 4},
{"head": 4, "tail": 3},
{"head": 5, "tail": 2}
]
)
gene_repo = GeneRepository(con)
gene_id = gene_repo.get_gene_id_for_endpoints(1, 2)
self.assertEqual(
gene_id,
0,
"The GeneRepository didn't find the appropriate gene_id for endpoints."
)
gene_id = gene_repo.get_gene_id_for_endpoints(3, 2)
self.assertEqual(
gene_id,
2,
"The GeneRepository didn't find the appropriate gene_id for endpoints."
)
gene_id = gene_repo.get_gene_id_for_endpoints(4, 3)
self.assertEqual(
gene_id,
4,
"The GeneRepository didn't find the appropriate gene_id for endpoints."
)
gene_id = gene_repo.get_gene_id_for_endpoints(10, 20)
self.assertEqual(
gene_id,
6,
"The GeneRepository didn't find the appropriate gene_id for endpoints."
)
def test_find_connecting_nodes(self):
con = mock_DatabaseConnector()
con.insert_many(
"genes",
[
{"head": 1, "tail": 2},
{"head": 1, "tail": 3},
{"head": 3, "tail": 2},
{"head": 1, "tail": 4},
{"head": 4, "tail": 3},
{"head": 5, "tail": 2}
]
)
gene_repo = GeneRepository(con)
connecting_nodes = gene_repo.find_connecting_nodes(1, 2)
self.assertListEqual(
connecting_nodes,
[3],
"GeneRepository didn't find the right connecting nodes."
)
