def test_slushy_syntax_errors(self):
syntax_errors = get_syntax_errors(self.slushy_graph)
for _, exc, _ in syntax_errors:
self.assertIsInstance(exc, BELSyntaxError)
self.assertEqual(1, len(syntax_errors))
_, first_exc, _ = syntax_errors[0]
self.assertEqual(98, first_exc.line_number)
def from_graph(graph: BELGraph) -> BELGraphSummary:
"""Create a summary of the graph."""
return BELGraphSummary(
# Attribute counters
function_count=graph.count.functions(),
modifications_count=graph.count.modifications(),
relation_count=graph.count.relations(),
authors_count=graph.count.authors(),
variants_count=graph.count.variants(),
namespaces_count=graph.count.namespaces(),
# Errors
undefined_namespaces=get_undefined_namespaces(graph),
undefined_annotations=get_undefined_annotations(graph),
namespaces_with_incorrect_names=get_namespaces_with_incorrect_names(
graph),
unused_namespaces=get_unused_namespaces(graph),
unused_annotations=get_unused_annotations(graph),
unused_list_annotation_values=get_unused_list_annotation_values(
graph),
naked_names=get_naked_names(graph),
error_count=graph.count.error_types(),
error_groups=get_most_common_errors(graph),
syntax_errors=get_syntax_errors(graph),
# Node pairs
regulatory_pairs=get_regulatory_pairs(graph),
chaotic_pairs=get_chaotic_pairs(graph),
dampened_pairs=get_dampened_pairs(graph),
contradictory_pairs=get_contradiction_summary(graph),
separate_unstable_correlation_triples=
get_separate_unstable_correlation_triples(graph),
mutually_unstable_correlation_triples=
get_mutually_unstable_correlation_triples(graph),
jens_unstable=get_jens_unstable(graph),
increase_mismatch_triplets=get_increase_mismatch_triplets(graph),
decrease_mismatch_triplets=get_decrease_mismatch_triplets(graph),
# Bibliometrics
citation_years=get_citation_years(graph),
confidence_count=count_confidences(graph),
# Random
hub_data=_count_top_hubs(graph),
disease_data=_count_top_diseases(graph),
)
def test_slushy_syntax_errors(self):
syntax_errors = get_syntax_errors(self.slushy_graph)
self.assertEqual(1, len(syntax_errors))
self.assertEqual(98, syntax_errors[0][0])