def test_namespaces_egf(self):
result = {
'HGNC': 10,
'GOBP': 1,
}
self.assertEqual(set(result), get_namespaces(egf_graph))
self.assertEqual(result, count_namespaces(egf_graph))
def test_namespaces_egf(self):
"""Test getting and counting namespaces' contents on the EGF graph."""
result = {
'HGNC': 10,
'GO': 1,
}
self.assertEqual(set(result), get_namespaces(egf_graph))
self.assertEqual(Counter(result), count_namespaces(egf_graph))
def test_namespaces_sialic(self):
"""Test getting and counting namespaces' contents on the sialic acid graph."""
result = {
'HGNC': 7,
'CHEBI': 1,
}
self.assertEqual(set(result), get_namespaces(sialic_acid_graph))
self.assertEqual(Counter(result), count_namespaces(sialic_acid_graph))
def test_namespaces_egf(self):
"""Test getting and counting namespaces' contents on the EGF graph."""
result = {
'hgnc': 15,
'go': 3,
'bel': 4,
}
self.assertEqual(set(result), get_namespaces(egf_graph))
self.assertEqual(Counter(result), count_namespaces(egf_graph))
def test_summarize_sialic(self):
"""Test getting and counting namespaces' contents on the sialic acid graph."""
namespace_result = {
'hgnc': 8,
'chebi': 2,
'bel': 3,
}
self.assertEqual(set(namespace_result),
get_namespaces(sialic_acid_graph))
self.assertEqual(Counter(namespace_result),
count_namespaces(sialic_acid_graph))
hgnc_result = {
'CD33':
3, # once as reference, once in complex, and once as variant
'TYROBP': 1,
'SYK': 1,
'PTPN6': 1,
'PTPN11': 1,
'TREM2': 1,
}
chebi_result = {
'sialic acid': 2,
}
names = get_names(sialic_acid_graph)
self.assertEqual(set(namespace_result), set(names))
self.assertEqual(set(hgnc_result), names['hgnc'])
self.assertEqual(set(chebi_result), names['chebi'])
self.assertEqual(set(hgnc_result),
get_names_by_namespace(sialic_acid_graph, 'hgnc'))
self.assertEqual(set(chebi_result),
get_names_by_namespace(sialic_acid_graph, 'chebi'))
self.assertEqual(
hgnc_result,
dict(count_names_by_namespace(sialic_acid_graph, 'hgnc')))
self.assertEqual(
chebi_result,
dict(count_names_by_namespace(sialic_acid_graph, 'chebi')))
def test_namespaces_sialic(self):
result = {'HGNC': 7, 'CHEBI': 1}
self.assertEqual(set(result), get_namespaces(sialic_acid_graph))
self.assertEqual(result, count_namespaces(sialic_acid_graph))