Quick start The first example failed with "dataset = TUDataset(root='/home/zhangzhen/pygstart/dataset/ENZYMES', name='ENZYMES')"

[zhang-zhen-project]

🐛 Describe the bug

It's code:

import torch
from torch_geometric.data import Data
from torch_geometric.datasets import TUDatase
dataset = TUDataset(root='/home/zhangzhen/pygstart/dataset/ENZYMES', name='ENZYMES')

Run failed info: TypeError: mv() takes 3 positional arguments but 4 were given

Then I get into class "tu_dataset.TUDataset", and found the code in line 199 "fs.mv(filename, osp.join(self.raw_dir, osp.basename(filename)))" however, I can't debug with it, please help me~ Thank you!

Versions

It's my conda list:

_libgcc_mutex 0.1 main
_openmp_mutex 5.1 1_gnu
aiohttp 3.9.5 pypi_0 pypi
aiosignal 1.3.1 pypi_0 pypi
async-timeout 4.0.3 pypi_0 pypi
attrs 23.2.0 pypi_0 pypi
ca-certificates 2024.3.11 h06a4308_0
certifi 2024.2.2 pypi_0 pypi
charset-normalizer 3.3.2 pypi_0 pypi
filelock 3.14.0 pypi_0 pypi
frozenlist 1.4.1 pypi_0 pypi
fsspec 2024.5.0 pypi_0 pypi
idna 3.7 pypi_0 pypi
jinja2 3.1.4 pypi_0 pypi
joblib 1.4.2 pypi_0 pypi
ld_impl_linux-64 2.38 h1181459_1
libffi 3.4.4 h6a678d5_1
libgcc-ng 11.2.0 h1234567_1
libgomp 11.2.0 h1234567_1
libstdcxx-ng 11.2.0 h1234567_1
markupsafe 2.1.5 pypi_0 pypi
mpmath 1.3.0 pypi_0 pypi
multidict 6.0.5 pypi_0 pypi
ncurses 6.4 h6a678d5_0
networkx 3.1 pypi_0 pypi
numpy 1.24.4 pypi_0 pypi
nvidia-cublas-cu12 12.1.3.1 pypi_0 pypi
nvidia-cuda-cupti-cu12 12.1.105 pypi_0 pypi
nvidia-cuda-nvrtc-cu12 12.1.105 pypi_0 pypi
nvidia-cuda-runtime-cu12 12.1.105 pypi_0 pypi
nvidia-cudnn-cu12 8.9.2.26 pypi_0 pypi
nvidia-cufft-cu12 11.0.2.54 pypi_0 pypi
nvidia-curand-cu12 10.3.2.106 pypi_0 pypi
nvidia-cusolver-cu12 11.4.5.107 pypi_0 pypi
nvidia-cusparse-cu12 12.1.0.106 pypi_0 pypi
nvidia-nccl-cu12 2.18.1 pypi_0 pypi
nvidia-nvjitlink-cu12 12.4.127 pypi_0 pypi
nvidia-nvtx-cu12 12.1.105 pypi_0 pypi
openssl 3.0.13 h7f8727e_1
pip 24.0 py38h06a4308_0
psutil 5.9.8 pypi_0 pypi
pyg-lib 0.4.0+pt21cu121 pypi_0 pypi
pyparsing 3.1.2 pypi_0 pypi
python 3.8.19 h955ad1f_0
readline 8.2 h5eee18b_0
requests 2.31.0 pypi_0 pypi
scikit-learn 1.3.2 pypi_0 pypi
scipy 1.10.1 pypi_0 pypi
setuptools 69.5.1 py38h06a4308_0
sqlite 3.45.3 h5eee18b_0
sympy 1.12 pypi_0 pypi
threadpoolctl 3.5.0 pypi_0 pypi
tk 8.6.14 h39e8969_0
torch 2.1.0+cu121.with.pypi.cudnn pypi_0 pypi
torch-cluster 1.6.3+pt21cu121 pypi_0 pypi
torch-geometric 2.5.3 pypi_0 pypi
torch-scatter 2.1.2+pt21cu121 pypi_0 pypi
torch-sparse 0.6.18+pt21cu121 pypi_0 pypi
torch-spline-conv 1.2.2+pt21cu121 pypi_0 pypi
tqdm 4.66.4 pypi_0 pypi
triton 2.1.0 pypi_0 pypi
typing-extensions 4.11.0 pypi_0 pypi
urllib3 2.2.1 pypi_0 pypi
wheel 0.43.0 py38h06a4308_0
xz 5.4.6 h5eee18b_1
yarl 1.9.4 pypi_0 pypi
zlib 1.2.13 h5eee18b_1

[gbg141]

Came accross the same problem with other datasets as well. It seems that pytorch_geometric>=2.5.0 versions have a bug at line 193 of torch_geometric/io/fs.py. The issue relates with the optional recursive parameter of the fs1.mv() method; I guess that a quick fix should be changing that line to something like fs1.mv(path1, path2, recursive=recursive)

Until this is tackled, downgrading to pytorch_geometric==2.4.0 could work as a temporary solution.

[rusty1s]

Fixed on master.

[FlynnDowey]

Same issue, still not fixed.

dataset = TUDataset(root='data/ENZYMES', name='ENZYMES', use_edge_attr=True, use_node_attr=True)
fs1.mv(path1, path2, recursive)
TypeError: mv() takes 3 positional arguments but 4 were given

[rusty1s]

Are you on nightly version of PyG?