'import torch_geometric' fails: File already exists in database: onnx/onnx-ml.proto

[yurivict]

🐛 Describe the bug

WARNING: All log messages before absl::InitializeLog() is called are written to STDERR
E0000 00:00:1713637565.117453       1 descriptor_database.cc:656] File already exists in database: onnx/onnx-ml.proto
F0000 00:00:1713637565.117565       1 descriptor.cc:2160] Check failed: GeneratedDatabase()->Add(encoded_file_descriptor, size) 
*** Check failure stack trace: ***

Command terminated

This 2021 bug report appears to be related.

Versions

2.5.2, 2.5.3

[rusty1s]

Are you sure this is PyG related? There is no onnx dependency in PyG.

[yurivict]

PyG triggers failure in PyTorch that depends on onnx.
But it probably isn't directly related to PyG.