pyg-team/pytorch_geometric

Pattern Findings

1979 matches across 16 categories. Click a row to expand file-level details.

Unused Imports880 hits · 710 pts

Severity	File	Line
LOW	benchmark/citation/__init__.py	1
LOW	benchmark/citation/__init__.py	2
LOW	benchmark/citation/__init__.py	2
LOW	benchmark/runtime/__init__.py	1
LOW	benchmark/utils/__init__.py	1
LOW	benchmark/utils/__init__.py	2
LOW	benchmark/utils/__init__.py	2
LOW	benchmark/utils/__init__.py	3
LOW	benchmark/utils/__init__.py	4
LOW	benchmark/utils/__init__.py	5
LOW	benchmark/utils/__init__.py	5
LOW	benchmark/utils/__init__.py	6
LOW	benchmark/utils/utils.py	19
LOW	benchmark/multi_gpu/training/training_benchmark_xpu.py	5
LOW	benchmark/points/__init__.py	1
LOW	benchmark/points/__init__.py	2
LOW	benchmark/kernel/__init__.py	1
LOW	benchmark/kernel/__init__.py	2
LOW	test/testing/test_decorators.py	7
LOW	test/testing/test_decorators.py	13
LOW	test/testing/test_decorators.py	19
LOW	graphgym/main.py	4
LOW	graphgym/custom_graphgym/__init__.py	1
LOW	graphgym/custom_graphgym/__init__.py	2
LOW	graphgym/custom_graphgym/__init__.py	3
LOW	graphgym/custom_graphgym/__init__.py	4
LOW	graphgym/custom_graphgym/__init__.py	5
LOW	graphgym/custom_graphgym/__init__.py	6
LOW	graphgym/custom_graphgym/__init__.py	7
LOW	graphgym/custom_graphgym/__init__.py	8
LOW	graphgym/custom_graphgym/__init__.py	9
LOW	graphgym/custom_graphgym/__init__.py	10
LOW	graphgym/custom_graphgym/__init__.py	11
LOW	graphgym/custom_graphgym/__init__.py	12
LOW	graphgym/custom_graphgym/__init__.py	13
LOW	graphgym/custom_graphgym/network/example.py	5
LOW	torch_geometric/experimental.py	9
LOW	torch_geometric/__init__.py	6
LOW	torch_geometric/__init__.py	6
LOW	torch_geometric/__init__.py	7
LOW	torch_geometric/__init__.py	7
LOW	torch_geometric/__init__.py	11
LOW	torch_geometric/__init__.py	12
LOW	torch_geometric/__init__.py	12
LOW	torch_geometric/__init__.py	13
LOW	torch_geometric/__init__.py	13
LOW	torch_geometric/__init__.py	13
LOW	torch_geometric/__init__.py	14
LOW	torch_geometric/__init__.py	15
LOW	torch_geometric/__init__.py	15
LOW	torch_geometric/__init__.py	15
LOW	torch_geometric/__init__.py	27
LOW	torch_geometric/__init__.py	27
LOW	torch_geometric/__init__.py	27
LOW	torch_geometric/config_store.py	23
LOW	torch_geometric/typing.py	166
LOW	torch_geometric/typing.py	311
LOW	torch_geometric/visualization/__init__.py	3
LOW	torch_geometric/visualization/__init__.py	3
LOW	torch_geometric/visualization/__init__.py	4
820 more matches not shown…

Hyper-Verbose Identifiers645 hits · 622 pts

Severity	File	Line	Snippet
LOW	benchmark/utils/utils.py	39	def get_dataset_with_transformation(name, root, use_sparse_tensor=False,
LOW	benchmark/kernel/train_eval.py	20	def cross_validation_with_val_set(dataset, model, folds, epochs, batch_size,
LOW	test/test_warnings.py	15	def test_no_warn_if_compiling(_):
LOW	test/test_onnx.py	32	def test_safe_onnx_export_ci_resilient() -> None:
LOW	test/test_onnx.py	62	def test_safe_onnx_export_success() -> None:
LOW	test/test_onnx.py	107	def test_safe_onnx_export_with_skip_on_error() -> None:
LOW	test/test_onnx.py	134	def test_serde_error_patterns() -> None:
LOW	test/test_onnx.py	173	def test_non_serde_error_reraise() -> None:
LOW	test/test_onnx.py	303	def test_pytest_environment_detection() -> None:
LOW	test/test_config_mixin.py	116	def test_config_mixin_compound() -> None:
LOW	test/test_edge_index.py	1375	def test_compile_create_edge_index():
LOW	test/test_inspector.py	102	def test_get_params_from_method_call() -> None:
LOW	test/visualization/test_graph_visualization.py	12	def test_visualize_graph_via_graphviz(tmp_path, backend):
LOW	test/visualization/test_graph_visualization.py	26	def test_visualize_graph_via_graphviz_with_node_labels(tmp_path, backend):
LOW	test/visualization/test_graph_visualization.py	41	def test_visualize_graph_via_networkx(tmp_path, backend):
LOW	test/llm/conftest.py	8	def pytest_collection_modifyitems(items):
LOW	test/llm/test_rag_loader.py	97	def test_initialization_basic(self):
LOW	test/llm/test_rag_loader.py	108	def test_initialization_with_all_params(self):
LOW	test/llm/test_rag_loader.py	140	def test_basic_query_without_vector_retriever(self):
LOW	test/llm/test_rag_loader.py	156	def test_query_with_vector_retriever(self):
LOW	test/llm/test_rag_loader.py	177	def test_query_with_subgraph_filter(self):
LOW	test/llm/test_rag_loader.py	204	def test_rag_loader_integration(tmp_path):
LOW	test/llm/test_large_graph_indexer.py	130	def _sorted_tensors_are_close(tensor1, tensor2):
LOW	test/llm/test_txt2qa.py	67	def test_route_after_validation_continue(self):
LOW	test/llm/test_txt2qa.py	73	def test_route_after_validation_feedback(self):
LOW	test/llm/test_txt2qa.py	95	def test_generate_single_query_nim(tmp_path):
LOW	test/llm/utils/test_rag_backend_utils.py	101	def create_mock_graph_and_triples():
LOW	test/llm/utils/test_rag_backend_utils.py	121	def test_apply_retrieval_via_pcst_isolated_node():
LOW	test/llm/utils/test_rag_backend_utils.py	171	def test_create_graph_basic_functionality(self):
LOW	test/llm/utils/test_rag_backend_utils.py	192	def test_create_graph_empty_triples(self):
LOW	test/llm/utils/test_rag_backend_utils.py	219	def test_create_backend_data_load(self):
LOW	test/llm/utils/test_rag_feature_store.py	43	def test_retrieve_seed_nodes_single_query(self):
LOW	test/llm/utils/test_rag_feature_store.py	78	def test_retrieve_seed_nodes_multiple_queries(self):
LOW	test/llm/utils/test_rag_feature_store.py	112	def test_load_subgraph_valid_sample(self, induced):
LOW	test/llm/utils/test_rag_graph_store.py	18	def test_sample_subgraph_with_valid_tensor_input():
LOW	test/llm/models/test_glem.py	10	def test_deal_nan_tensor_replaces_nans():
LOW	test/llm/models/test_glem.py	20	def test_deal_nan_non_tensor_passthrough():
LOW	test/llm/models/test_glem.py	26	def test_deal_nan_tensor_dtypes(dtype):
LOW	test/llm/models/test_glem.py	46	def test_deal_nan_is_non_mutating():
LOW	test/llm/models/test_glem.py	76	def test_glem_bert_tiny_branch(monkeypatch):
LOW	test/llm/models/test_glem.py	101	def test_glem_auto_model_branch(monkeypatch):
LOW	test/llm/models/test_llm.py	127	def test_llm_variable_lengths(dummy_llm):
LOW	test/llm/models/test_sentence_transformer.py	17	def test_sentence_transformer(batch_size, pooling_strategy, device, verbose):
LOW	test/llm/models/test_g_retriever.py	63	def test_g_retriever_many_tokens() -> None:
LOW	test/llm/models/test_g_retriever.py	160	def test_gretriever_prefix_embedding_injection(batch_size):
LOW	test/llm/models/test_txt2kg.py	22	def test_parse_n_check_triples_formats():
LOW	test/llm/models/test_txt2kg.py	29	def test_chunk_text_simple_sentence():
LOW	test/llm/models/test_txt2kg.py	44	def test_local_lm_integration(monkeypatch):
LOW	test/llm/models/test_txt2kg.py	83	def test_merge_triples_deterministically_basic():
LOW	test/llm/models/test_txt2kg.py	101	def test_merge_triples_deterministically_unicode_and_nonstring():
LOW	test/llm/models/test_txt2kg.py	119	def test_merge_triples_deterministically_empty():
LOW	test/llm/models/test_txt2kg.py	127	def test_merge_triples_deterministically_singleton():
LOW	test/llm/models/test_txt2kg.py	135	def test_chunk_to_triples_str_cloud(monkeypatch):
LOW	test/llm/models/test_txt2kg.py	191	def test_extract_relevant_triples_cloud(monkeypatch):
LOW	test/llm/models/test_txt2kg.py	202	def test_multiproc_helper_success(monkeypatch):
LOW	test/llm/models/test_txt2kg.py	233	def test_multiproc_helper_retry(monkeypatch):
LOW	test/llm/models/test_txt2kg.py	292	def test_add_doc_empty_text_cpu(kg_cpu):
LOW	test/llm/models/test_txt2kg.py	308	def test_add_doc_nonempty_text_placeholder(kg_cpu, monkeypatch):
LOW	test/explain/conftest.py	139	def _check_explanation_hetero(
LOW	test/explain/test_explanation.py	13	def create_random_explanation(
585 more matches not shown…

Deep Nesting243 hits · 236 pts

Severity	File	Line
LOW	benchmark/citation/train_eval.py	43
LOW	benchmark/citation/train_eval.py	121
LOW	benchmark/training/training_benchmark.py	98
LOW	benchmark/loader/neighbor_loader.py	16
LOW	benchmark/points/train_eval.py	58
LOW	benchmark/inference/inference_benchmark.py	44
LOW	benchmark/kernel/main_performance.py	75
LOW	benchmark/kernel/main_performance.py	117
LOW	benchmark/kernel/train_eval.py	20
LOW	test/test_onnx.py	32
LOW	test/test_onnx.py	62
LOW	test/test_onnx.py	107
LOW	test/test_onnx.py	134
LOW	test/test_onnx.py	173
LOW	test/test_onnx.py	197
LOW	test/test_onnx.py	233
LOW	test/test_onnx.py	272
LOW	test/test_onnx.py	303
LOW	test/test_onnx.py	335
LOW	test/test_onnx.py	385
LOW	test/explain/conftest.py	106
LOW	test/explain/conftest.py	138
LOW	test/explain/conftest.py	86
LOW	test/explain/conftest.py	107
LOW	test/explain/conftest.py	139
LOW	test/explain/conftest.py	289
LOW	test/explain/test_hetero_explanation.py	13
LOW	test/explain/algorithm/test_captum.py	65
LOW	test/explain/algorithm/test_attention_explainer.py	69
LOW	test/explain/algorithm/test_attention_explainer.py	145
LOW	test/explain/algorithm/test_graphmask_explainer.py	28
LOW	test/explain/algorithm/test_gnn_explainer.py	38
LOW	test/explain/algorithm/test_captum_hetero.py	35
LOW	test/explain/algorithm/test_captum_explainer.py	54
LOW	test/distributed/test_dist_neighbor_loader.py	82
LOW	test/utils/conftest.py	35
LOW	test/sampler/test_sampler_neighbor_sampler.py	63
LOW	graphgym/configs_gen.py	90
LOW	graphgym/configs_gen.py	124
LOW	graphgym/configs_gen.py	166
LOW	torch_geometric/experimental.py	95
LOW	torch_geometric/experimental.py	100
LOW	torch_geometric/experimental.py	115
LOW	torch_geometric/index.py	696
LOW	torch_geometric/edge_index.py	1477
LOW	torch_geometric/edge_index.py	1849
LOW	torch_geometric/inspector.py	514
LOW	torch_geometric/inspector.py	207
LOW	torch_geometric/inspector.py	336
LOW	torch_geometric/config_store.py	190
LOW	torch_geometric/config_store.py	31
LOW	torch_geometric/config_store.py	119
LOW	torch_geometric/config_store.py	36
LOW	torch_geometric/config_store.py	124
LOW	torch_geometric/hash_tensor.py	39
LOW	torch_geometric/llm/models/qa_gen.py	1384
LOW	torch_geometric/llm/models/qa_gen.py	1715
LOW	torch_geometric/llm/models/qa_gen.py	2239
LOW	torch_geometric/llm/models/qa_gen.py	2350
LOW	torch_geometric/llm/models/qa_gen.py	2414
183 more matches not shown…

Cross-File Repetition20 hits · 100 pts

Severity	File	Snippet
HIGH	torch_geometric/nn/attention/performer.py	forward pass. args: x (torch.tensor): node feature tensor :math:`\mathbf{x} \in \mathbb{r}^{b \times n \times f}`, with
HIGH	torch_geometric/nn/attention/polynormer.py	forward pass. args: x (torch.tensor): node feature tensor :math:`\mathbf{x} \in \mathbb{r}^{b \times n \times f}`, with
HIGH	torch_geometric/nn/attention/sgformer.py	forward pass. args: x (torch.tensor): node feature tensor :math:`\mathbf{x} \in \mathbb{r}^{b \times n \times f}`, with
HIGH	torch_geometric/nn/dense/dense_gat_conv.py	forward pass. args: x (torch.tensor): node feature tensor :math:`\mathbf{x} \in \mathbb{r}^{b \times n \times f}`, with
HIGH	torch_geometric/nn/dense/dense_gcn_conv.py	forward pass. args: x (torch.tensor): node feature tensor :math:`\mathbf{x} \in \mathbb{r}^{b \times n \times f}`, with
HIGH	torch_geometric/nn/dense/dense_gin_conv.py	forward pass. args: x (torch.tensor): node feature tensor :math:`\mathbf{x} \in \mathbb{r}^{b \times n \times f}`, with
HIGH	torch_geometric/nn/models/deep_graph_infomax.py	evaluates latent space quality via a logistic regression downstream task.
HIGH	torch_geometric/nn/models/node2vec.py	evaluates latent space quality via a logistic regression downstream task.
HIGH	torch_geometric/nn/models/metapath2vec.py	evaluates latent space quality via a logistic regression downstream task.
HIGH	torch_geometric/nn/norm/pair_norm.py	forward pass. args: x (torch.tensor): the source tensor. batch (torch.tensor, optional): the batch vector :math:`\mathbf
HIGH	torch_geometric/nn/norm/graph_size_norm.py	forward pass. args: x (torch.tensor): the source tensor. batch (torch.tensor, optional): the batch vector :math:`\mathbf
HIGH	torch_geometric/nn/norm/instance_norm.py	forward pass. args: x (torch.tensor): the source tensor. batch (torch.tensor, optional): the batch vector :math:`\mathbf
HIGH	torch_geometric/nn/norm/graph_norm.py	forward pass. args: x (torch.tensor): the source tensor. batch (torch.tensor, optional): the batch vector :math:`\mathbf
HIGH	torch_geometric/nn/norm/layer_norm.py	forward pass. args: x (torch.tensor): the source tensor. batch (torch.tensor, optional): the batch vector :math:`\mathbf
HIGH	torch_geometric/data/feature_store.py	to be implemented by :class:`featurestore` subclasses.
HIGH	torch_geometric/data/feature_store.py	to be implemented by :class:`featurestore` subclasses.
HIGH	torch_geometric/data/feature_store.py	to be implemented by :class:`featurestore` subclasses.
HIGH	torch_geometric/data/graph_store.py	to be implemented by :class:`graphstore` subclasses.
HIGH	torch_geometric/data/graph_store.py	to be implemented by :class:`graphstore` subclasses.
HIGH	torch_geometric/data/graph_store.py	to be implemented by :class:`graphstore` subclasses.

Self-Referential Comments30 hits · 82 pts

Severity	File	Line	Snippet
MEDIUM	test/llm/utils/test_rag_feature_store.py	116	# Create a mock SamplerOutput
MEDIUM	test/llm/models/test_glem.py	27	# Create a tensor with one NaN value
MEDIUM	test/explain/conftest.py	268	# Create a HeteroConv model
MEDIUM	test/explain/algorithm/test_attention_explainer.py	44	# Create a single BaseGNN that uses all three attention mechanisms
MEDIUM	test/explain/algorithm/test_attention_explainer.py	105	# Create a dictionary of attention-based convolutions for each edge
MEDIUM	test/explain/algorithm/test_attention_explainer.py	122	# Create the HeteroConv layer
MEDIUM	test/explain/algorithm/test_attention_explainer.py	251	# Create the hetero attention model
MEDIUM	test/explain/algorithm/test_attention_explainer.py	254	# Create the explainer
MEDIUM	test/explain/algorithm/test_attention_explainer.py	290	# Create the hetero conv attention model
MEDIUM	test/explain/algorithm/test_attention_explainer.py	293	# Create the explainer
MEDIUM	test/utils/test_negative_sampling.py	33	# Create a fully-connected graph:
MEDIUM	torch_geometric/llm/utils/vectorrag.py	121	# Create a new DocumentRetriever with the loaded data
MEDIUM	torch_geometric/nn/to_hetero_with_bases_transformer.py	537	# This method is used to split the output tensors into individual type-wise
MEDIUM	torch_geometric/nn/aggr/base.py	47	# Define the boundary indices for three sets:
MEDIUM	torch_geometric/datasets/web_qsp_dataset.py	124	# Create an iterator for each element's graph in the current split
MEDIUM	torch_geometric/datasets/ged_dataset.py	208	# Create a one-hot encoded feature matrix denoting the atom
MEDIUM	torch_geometric/data/remote_backend_utils.py	1	# This file defines a set of utilities for remote backends (backends that are
MEDIUM	torch_geometric/data/in_memory_dataset.py	232	# Create the on-disk dataset ==========================================
MEDIUM	torch_geometric/data/database.py	307	# Create the table (if it does not exist) by mapping the Python schema
MEDIUM	torch_geometric/data/hetero_data.py	63	# Create an edge type "(author, writes, paper)" and building the
MEDIUM	torch_geometric/data/lightning/datamodule.py	127	# Define a new `NeighborSampler` to be re-used across data loaders:
MEDIUM	examples/llm/txt2qa.py	158	# Create the graph
MEDIUM	examples/llm/g_retriever.py	62	# Create a dictionary mapping parameter names to their requires_grad status
MEDIUM	examples/llm/txt2qa_config/text_config_nim.yaml	2	# This file contains all the settings for the QA generation workflow
MEDIUM	examples/llm/txt2qa_config/text_config_vllm.yaml	2	# This file contains all the settings for the QA generation workflow
MEDIUM	examples/distributed/kuzu/papers_100M/train.py	32	# The below code sets up the remote backend of Kùzu for PyG.
MEDIUM	…d/graphlearn_for_pytorch/dist_train_sage_supervised.py	126	# Define the model and optimizer.
MEDIUM	examples/quiver/multi_gpu_quiver.py	131	# The below code enable Quiver for PyG.
MEDIUM	examples/quiver/single_gpu_quiver.py	28	# The below code enable Quiver for PyG.
MEDIUM	examples/pytorch_ignite/gin.py	127	# Create a tensorboard logger to write logs:

Excessive Try-Catch Wrapping94 hits · 80 pts

Severity	File	Line	Snippet
LOW	test/nn/dense/test_linear.py	274	except Exception:
LOW	torch_geometric/device.py	12	except Exception:
LOW	torch_geometric/config_store.py	19	except Exception:
LOW	torch_geometric/config_store.py	25	except Exception:
LOW	torch_geometric/_onnx.py	77	except Exception as e:
LOW	torch_geometric/_onnx.py	130	except Exception:
LOW	torch_geometric/_onnx.py	148	except Exception:
LOW	torch_geometric/_onnx.py	164	except Exception:
LOW	torch_geometric/_onnx.py	186	except Exception:
LOW	torch_geometric/typing.py	82	except Exception:
LOW	torch_geometric/typing.py	87	except Exception:
LOW	torch_geometric/typing.py	89	except Exception as e:
LOW	torch_geometric/typing.py	141	except Exception as e:
LOW	torch_geometric/typing.py	169	except Exception as e:
LOW	torch_geometric/typing.py	302	except Exception:
LOW	torch_geometric/typing.py	313	except Exception:
LOW	torch_geometric/hash_tensor.py	46	except Exception:
LOW	torch_geometric/metrics/link_pred.py	13	except Exception:
LOW	torch_geometric/llm/models/qa_gen.py	1154	except Exception as e:
LOW	torch_geometric/llm/models/qa_gen.py	1163	except Exception as e:
LOW	torch_geometric/llm/models/qa_gen.py	613	except Exception as e:
LOW	torch_geometric/llm/models/qa_gen.py	635	except Exception:
LOW	torch_geometric/llm/models/qa_gen.py	780	except Exception as e:
LOW	torch_geometric/llm/models/qa_gen.py	821	except Exception as e:
LOW	torch_geometric/llm/models/qa_gen.py	834	except Exception:
LOW	torch_geometric/llm/models/qa_gen.py	852	except Exception as e2:
LOW	torch_geometric/llm/models/qa_gen.py	1109	except Exception as e:
LOW	torch_geometric/llm/models/qa_gen.py	1344	except Exception as e:
LOW	torch_geometric/llm/models/qa_gen.py	1501	except Exception:
LOW	torch_geometric/llm/models/qa_gen.py	1551	except Exception:
LOW	torch_geometric/llm/models/qa_gen.py	1702	except Exception:
LOW	torch_geometric/llm/models/qa_gen.py	2753	except Exception:
LOW	torch_geometric/llm/models/qa_gen.py	2905	except Exception as e:
LOW	torch_geometric/llm/models/qa_gen.py	3022	except Exception as e:
LOW	torch_geometric/llm/models/qa_gen.py	3061	except Exception as e:
LOW	torch_geometric/llm/models/qa_gen.py	3323	except Exception as e:
LOW	torch_geometric/llm/models/qa_gen.py	3492	except Exception as e:
LOW	torch_geometric/llm/models/qa_gen.py	3515	except Exception as e:
LOW	torch_geometric/llm/models/qa_gen.py	3635	except Exception as e:
LOW	torch_geometric/llm/models/qa_gen.py	3854	except Exception as e:
LOW	torch_geometric/llm/models/qa_gen.py	3881	except Exception as e:
LOW	torch_geometric/llm/models/qa_gen.py	4201	except Exception as e:
LOW	torch_geometric/llm/models/qa_gen.py	4376	except Exception as e:
LOW	torch_geometric/llm/models/qa_gen.py	3586	except Exception as e:
LOW	torch_geometric/llm/models/qa_gen.py	3596	except Exception as e1:
LOW	torch_geometric/llm/models/qa_gen.py	2231	except Exception:
LOW	torch_geometric/llm/models/qa_gen.py	2369	except Exception:
LOW	torch_geometric/llm/models/qa_gen.py	3750	except Exception as e:
LOW	torch_geometric/llm/models/txt2kg.py	195	except Exception as e:
LOW	torch_geometric/llm/models/txt2kg.py	317	except Exception:
LOW	torch_geometric/llm/models/txt2kg.py	334	except Exception:
LOW	…rch_geometric/explain/algorithm/graphmask_explainer.py	410	except Exception:
LOW	…rch_geometric/explain/algorithm/graphmask_explainer.py	416	except Exception:
LOW	torch_geometric/nn/sequential.py	265	except Exception as e: # pragma: no cover
LOW	torch_geometric/nn/conv/message_passing.py	961	except Exception as e: # pragma: no cover
LOW	torch_geometric/nn/conv/message_passing.py	994	except Exception as e: # pragma: no cover
LOW	torch_geometric/distributed/event_loop.py	22	except Exception as e:
LOW	torch_geometric/distributed/event_loop.py	84	except Exception as e:
MEDIUM	torch_geometric/distributed/event_loop.py	19	def on_done(*_):
LOW	torch_geometric/distributed/dist_neighbor_sampler.py	392	except Exception:
34 more matches not shown…

Hallucination Indicators4 hits · 40 pts

Severity	File	Line	Snippet
CRITICAL	test/test_config_store.py	118	assert (cfg.dataset.transform.NormalizeFeatures._target_.split('.')[-1] ==
CRITICAL	test/test_config_store.py	123	assert (cfg.dataset.transform.AddSelfLoops._target_.split('.')[-1] ==
CRITICAL	test/data/lightning/test_datamodule.py	50	self.trainer.datamodule.train_dataset._data.x.add_(1)
CRITICAL	test/data/lightning/test_datamodule.py	177	self.trainer.datamodule.data.x.add_(1)

AI Slop Vocabulary18 hits · 31 pts

Severity	File	Line	Snippet
MEDIUM	test/test_onnx.py	67	# Use comprehensive mocking to avoid any real ONNX calls
MEDIUM	test/test_onnx.py	146	# Use multiple patch targets to ensure comprehensive mocking
MEDIUM	test/test_onnx.py	178	# Use comprehensive mocking to prevent real ONNX calls
MEDIUM	torch_geometric/backend.py	8	# If set to `None`, will automatically decide whether to utilize
LOW	torch_geometric/llm/models/qa_gen.py	2816	# No hop contexts, just use top-level as-is
MEDIUM	torch_geometric/nn/sequential.py	31	r"""An extension of the :class:`torch.nn.Sequential` container in order to
LOW	torch_geometric/datasets/karate.py	76	# (we just use the first one).
MEDIUM	torch_geometric/datasets/medshapenet.py	75	r"""The absolute filepaths that must be present in order to skip
MEDIUM	torch_geometric/contrib/nn/models/rbcd_attack.py	602	<https://www.cs.cit.tum.de/daml/are-gnn-defenses-robust>`_ for details.
MEDIUM	torch_geometric/profile/profile.py	49	r"""A decorator to facilitate profiling a function, e.g., obtaining
MEDIUM	torch_geometric/profile/profile.py	145	r"""A context decorator to facilitate timing a function, e.g., obtaining
MEDIUM	torch_geometric/loader/node_loader.py	274	# f'best practices for PyG [{link}])')
MEDIUM	torch_geometric/loader/utils.py	233	# NOTE Here, we utilize `feature_store.multi_get` to give the feature store
MEDIUM	torch_geometric/loader/utils.py	267	# NOTE Here, we utilize `feature_store.multi_get` to give the feature store
LOW	torch_geometric/data/collate.py	274	# Other-wise, just return the list of values as it is.
MEDIUM	torch_geometric/data/dataset.py	199	r"""The absolute filepaths that must be present in order to skip
MEDIUM	torch_geometric/data/dataset.py	211	r"""The absolute filepaths that must be present in order to skip
LOW	examples/llm/txt2qa.py	510	# If file_path is not relative to input_dir, just use the stem

Redundant / Tautological Comments15 hits · 20 pts

Severity	File	Line	Snippet
LOW	test/explain/algorithm/test_pg_explainer.py	222	# Check if the explanation is valid
LOW	test/explain/algorithm/test_pg_explainer.py	371	# Check if the explanation is valid
LOW	test/explain/algorithm/test_pg_explainer.py	467	# Check if the explanation is valid
LOW	test/loader/test_link_neighbor_loader.py	284	# Check if each seed edge has a different batch:
LOW	torch_geometric/llm/utils/backend_utils.py	383	) # Check if pandas is installed
LOW	torch_geometric/llm/models/qa_gen.py	3847	# Check if segment overlaps with QA time range
LOW	torch_geometric/llm/models/qa_gen.py	4174	# Check if we have context_segments from processing
LOW	…rch_geometric/explain/algorithm/attention_explainer.py	128	# Check if all components appear in the module name in
LOW	…rch_geometric/explain/algorithm/attention_explainer.py	180	# Check if we collected any attention coefficients.
LOW	torch_geometric/datasets/tag_dataset.py	368	# Check if the .pt files already exist
LOW	torch_geometric/io/fs.py	167	# Open file has protocol stripped.
LOW	torch_geometric/utils/embedding.py	97	# Check if the outputs is a dictionary mapping node types to embeddings
LOW	torch_geometric/contrib/nn/models/rbcd_attack.py	497	# Check if middle point is root
LOW	examples/llm/txt2qa.py	394	# Check if file exists before removing
LOW	examples/llm/txt2qa.py	531	# Check if output file already exists (resume functionality)

Decorative Section Separators6 hits · 14 pts

Severity	File	Line	Snippet
MEDIUM	test/utils/test_scatter.py	144	# ================
MEDIUM	test/utils/test_scatter.py	153	# ================
MEDIUM	test/utils/test_segment.py	58	# ================
MEDIUM	test/utils/test_segment.py	63	# ================
MEDIUM	torch_geometric/graphgym/config.py	321	# ===================================
MEDIUM	torch_geometric/graphgym/config.py	329	# ===================================

Verbosity Indicators12 hits · 14 pts

Severity	File	Line	Snippet
LOW	torch_geometric/llm/models/qa_gen.py	1390	# Step 1: Clean markdown code blocks
LOW	torch_geometric/llm/models/qa_gen.py	1395	# Step 2: Try direct parsing first (fastest path)
LOW	torch_geometric/llm/models/qa_gen.py	1406	# Step 3: Find JSON array/object with bracket counting
LOW	torch_geometric/llm/models/qa_gen.py	1470	# Step 4: Last resort - old regex fallback
LOW	torch_geometric/llm/models/qa_gen.py	2009	# Step 1: Calculate exact (floating-point) values for each category
LOW	torch_geometric/llm/models/qa_gen.py	2016	# Step 2: Sort by fractional part descending (0.9, 0.9, 0.2)
LOW	torch_geometric/llm/models/qa_gen.py	2021	# Step 3: Assign floor values first (everyone gets their integer part)
LOW	torch_geometric/llm/models/qa_gen.py	2027	# Step 4: Distribute remaining items based on fractional parts
LOW	torch_geometric/llm/models/qa_gen.py	2035	# Step 5: Edge case - if still items left (e.g., rounding errors)
LOW	examples/quiver/single_gpu_quiver.py	21	# Step 1: Using Quiver's sampler
LOW	examples/quiver/single_gpu_quiver.py	99	# Step 2: Using Quiver's Feature
LOW	examples/quiver/single_gpu_quiver.py	117	# Step 3: Training the PyG Model with Quiver

Over-Commented Block7 hits · 7 pts

Severity	File	Line	Snippet
LOW	test/utils/test_scatter.py	141
LOW	test/sampler/test_sampler_neighbor_sampler.py	521	expected_output = SamplerOutput(
LOW	torch_geometric/nn/conv/meshcnn_conv.py	401	# Option 2
LOW	torch_geometric/graphgym/config.py	301	# Auto match computational budget, match upper bound / lower bound
LOW	torch_geometric/graphgym/config.py	321	# ===================================
LOW	examples/tgn.py	1	# This code achieves a performance of around 96.60%. However, it is not
LOW	.github/workflows/testing.yml	81	"os": ["ubuntu-22.04", "macos-14", "windows-2022"],

Docstring Block Structure1 hit · 5 pts

Severity	File	Line	Snippet
HIGH	torch_geometric/nn/models/gpse.py	1009	Calculates the average cosine similarity between predicted and true features on a batch of graphs. Args:

Cross-Language Confusion1 hit · 5 pts

Severity	File	Line	Snippet
HIGH	torch_geometric/utils/geodesic.py	29	To install, run :obj:`pip install cython && pip install gdist`.

Overly Generic Function Names2 hits · 2 pts

Severity	File	Line	Snippet
LOW	torch_geometric/distributed/event_loop.py	92	def run_task(self, coro):
LOW	examples/llm/txt2qa.py	516	async def process_data(self, data: str, data_id: str,

Slop Phrases1 hit · 0 pts

Severity	File	Line	Snippet
LOW	torch_geometric/io/fs.py	145	# If the source path points to a directory, we need to make sure to

Score History

Severity Breakdown

Pattern Findings