def test_populate_hpo(connection, hpo_terms, mim_terms):
"""docstring for test_populate_hpo"""
populate_hpo(
connection=connection,
hpo_terms=hpo_terms,
)
cursor = get_cursor(connection=connection)
cursor.execute("SELECT * from hpo where hpo_id = '1459'")
for row in cursor.fetchmany():
assert row['description'] == "1-3 toe syndactyly"
assert row['name'] == "HP:0001459"
def test_populate_hpo(connection, hpo_terms, mim_terms):
"""docstring for test_populate_hpo"""
populate_hpo(
connection=connection,
hpo_terms=hpo_terms,
)
cursor = get_cursor(connection=connection)
cursor.execute("SELECT * from hpo where hpo_id = '1459'")
for row in cursor.fetchmany():
assert row['description'] == "1-3 toe syndactyly"
assert row['name'] == "HP:0001459"
def database(request, connection, hpo_terms, mim_terms, genes):
"""Return a populated database"""
populate_hpo(
connection=connection,
hpo_terms=hpo_terms,
)
populate_disease(
connection=connection,
disease_terms=mim_terms
)
populate_genes(
connection=connection,
genes=genes
)
return connection
