def test_get_all_cytogenetic_bands(self):
""" POSITIVE CASE - Test to check whether all cytobands are returned. """
expected_number_of_cytogenetic_bands = 11
response = self.client.get('/api/bands/')
self.assert200(response)
self.assertEqual(len(response.json), expected_number_of_cytogenetic_bands)
validate_response200_payload(response, CYTOGENETIC_BAND_SCHEMA)
def test_get_cytogenetic_bands_for_human_chr(self):
""" POSITIVE CASE - H. sapiens (human) and chromosome
- return all available cytogenetic bands.
"""
expected_number_of_cytogenetic_bands = 5
response = self.client.get('api/bands/10090/1')
self.assert200(response)
self.assertEqual(len(response.json), expected_number_of_cytogenetic_bands)
validate_response200_payload(response, CYTOGENETIC_BAND_SCHEMA)
def test_get_loci_by_valid_species_and_chromosome(self):
"""
Positive case: tests the endpoint when given a valid species ID (10090) and a valid chromosome (1).
"""
response = self.client.get('api/qtls/10090/1')
self.assert200(response)
self.assertGreater(len(response.json), 0)
validate_response200_payload(response, QTLS_SCHEMA)
def test_get_loci_by_valid_species(self):
"""
Positive case: tests the endpoint when given a valid species ID, such as 10090 for M. musculus.
"""
response = self.client.get('api/qtls/10090')
self.assert200(response)
self.assertGreater(len(response.json), 0)
validate_response200_payload(response, QTLS_SCHEMA)
def test_get_all_loci(self):
"""
Positive case: tests the endpoint when provided no parameters.
"""
response = self.client.get('api/qtls/')
self.assert200(response)
self.assertGreater(len(response.json), 0)
validate_response200_payload(response, QTLS_SCHEMA)
def test_get_terms_by_valid_ontology_prefix(self):
"""
POSITIVE CASE: test the endpoint when provided a specific valid ontology symbol - GO (for Gene Ontology).
:return: status 200 and a list of objects, each having fields ('id', 'name', 'namespace', 'def', 'descendants')
"""
response = self.client.get('/api/ontologies/terms/GO')
self.assert200(response)
self.assertGreater(len(response.json), 0)
# validate response payload: field names and types
validate_response200_payload(response,
ontology_terms_schema.SCHEMA_ONT_TERMS)
def test_get_terms_metadata_by_valid_ontology_id(self):
"""
POSITIVE CASE: test the endpoint when provided a specific valid ontology term ID, such as GO:0002027.
:return: status 200 and an object having fields ('namespace', 'def', 'descendants')
"""
# call the endpoint
response = self.client.get('/api/ontologies/metadata/GO:0033862')
self.assert200(response)
self.assertGreater(len(response.json), 0)
# validate response payload: field names and types
validate_response200_payload(response,
ontology_terms_schema.SCHEMA_ONT_METADATA)
def test_get_associated_genes_by_valid_species_and_ontology_term(self):
"""
POSITIVE CASE: test the endpoint provided a specific valid species taxonomy ID and a specific valid ontology term ID.
:return: status 200 and a list of objects, each having fields as specified in 'expected_object_fields'
"""
# call the endpoint
response = self.client.get(
'/api/ontologies/associations/10090/GO:0046983')
self.assert200(response)
self.assertGreater(len(response.json), 0)
# validate response payload: field names and types
validate_response200_payload(
response, ontology_terms_schema.SCHEMA_ONT_ASSOCIATIONS)