Comments (15)
lihua213
commented on June 27, 2024
19
The error can be solved by "import torch" first!
for example:
import torch
from torch_sparse import spspmm
from pytorch_scatter.
kwohlfahrt
commented on June 27, 2024
11
I had this problem on Linux (Travis-CI actually) today, and it was solved by clearing the pip cache. Just leaving a note here on the off chance somebody else runs into this issue.
from pytorch_scatter.
qianwenyuan
commented on June 27, 2024
5
@kwohlfahrt can you tell me how to clear pip cache in linux ubuntu?
rm -r ~/.cache/pip/
i just deleted pip cache, and reinstall torch_scatter. The problem was solved.
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w4nderlust
commented on June 27, 2024
4
I'm having the same problem on ubuntu 18.04, clearing the cache doesn't seem to help:
...
import torch_geometric.transforms as T
File "/home/piero/dev/meta-graph/mgvenv/lib/python3.6/site-packages/torch_geometric/transforms/__init__.py", line 8, in <module>
from .point_pair_features import PointPairFeatures
File "/home/piero/dev/meta-graph/mgvenv/lib/python3.6/site-packages/torch_geometric/transforms/point_pair_features.py", line 2, in <module>
from torch_geometric.nn.conv.ppf_conv import point_pair_features
File "/home/piero/dev/meta-graph/mgvenv/lib/python3.6/site-packages/torch_geometric/nn/__init__.py", line 2, in <module>
from .data_parallel import DataParallel
File "/home/piero/dev/meta-graph/mgvenv/lib/python3.6/site-packages/torch_geometric/nn/data_parallel.py", line 5, in <module>
from torch_geometric.data import Batch
File "/home/piero/dev/meta-graph/mgvenv/lib/python3.6/site-packages/torch_geometric/data/__init__.py", line 1, in <module>
from .data import Data
File "/home/piero/dev/meta-graph/mgvenv/lib/python3.6/site-packages/torch_geometric/data/data.py", line 4, in <module>
from torch_geometric.utils import (contains_isolated_nodes,
File "/home/piero/dev/meta-graph/mgvenv/lib/python3.6/site-packages/torch_geometric/utils/__init__.py", line 4, in <module>
from .dropout import dropout_adj
File "/home/piero/dev/meta-graph/mgvenv/lib/python3.6/site-packages/torch_geometric/utils/dropout.py", line 2, in <module>
from torch_sparse import coalesce
File "/home/piero/dev/meta-graph/mgvenv/lib/python3.6/site-packages/torch_sparse/__init__.py", line 2, in <module>
from .coalesce import coalesce
File "/home/piero/dev/meta-graph/mgvenv/lib/python3.6/site-packages/torch_sparse/coalesce.py", line 4, in <module>
from .utils.unique import unique
File "/home/piero/dev/meta-graph/mgvenv/lib/python3.6/site-packages/torch_sparse/utils/unique.py", line 5, in <module>
import torch_sparse.unique_cuda
ImportError: /home/piero/dev/meta-graph/mgvenv/lib/python3.6/site-packages/torch_sparse/unique_cuda.cpython-36m-x86_64-linux-gnu.so: undefined symbol: _ZN6caffe26detail37_typeMetaDataInstance_preallocated_32E
If you suspect this is an IPython bug, please report it at:
https://github.com/ipython/ipython/issues
or send an email to the mailing list at [email protected]
You can print a more detailed traceback right now with "%tb", or use "%debug"
to interactively debug it.
Extra-detailed tracebacks for bug-reporting purposes can be enabled via:
%config Application.verbose_crash=True
from pytorch_scatter.
rusty1s
commented on June 27, 2024
2
Your installation suggests that it does not recompile the kernels and is using a cached version instead. Please uninstall the packages first before reinstalling them:
pip uninstall torch-scatter torch-sparse
Run this command multiple times.
from pytorch_scatter.
w4nderlust
commented on June 27, 2024
1
Unfortunately I doubt it's a CUDA related issue, as I'm trying to run the same code from a Mac laptop without CUDA and get the same error:
Traceback (most recent call last):
File "main.py", line 8, in <module>
from data import load_dataset
File "/Users/piero/Development/mgraph/mgraph/data.py", line 8, in <module>
import torch_geometric.transforms as T
File "/Users/piero/Development/mgraph/mgvenv/lib/python3.7/site-packages/torch_geometric/__init__.py", line 2, in <module>
import torch_geometric.nn
File "/Users/piero/Development/mgraph/mgvenv/lib/python3.7/site-packages/torch_geometric/nn/__init__.py", line 2, in <module>
from .data_parallel import DataParallel
File "/Users/piero/Development/mgraph/mgvenv/lib/python3.7/site-packages/torch_geometric/nn/data_parallel.py", line 5, in <module>
from torch_geometric.data import Batch
File "/Users/piero/Development/mgraph/mgvenv/lib/python3.7/site-packages/torch_geometric/data/__init__.py", line 1, in <module>
from .data import Data
File "/Users/piero/Development/mgraph/mgvenv/lib/python3.7/site-packages/torch_geometric/data/data.py", line 7, in <module>
from torch_sparse import coalesce
File "/Users/piero/Development/mgraph/mgvenv/lib/python3.7/site-packages/torch_sparse/__init__.py", line 2, in <module>
from .coalesce import coalesce
File "/Users/piero/Development/mgraph/mgvenv/lib/python3.7/site-packages/torch_sparse/coalesce.py", line 2, in <module>
import torch_scatter
File "/Users/piero/Development/mgraph/mgvenv/lib/python3.7/site-packages/torch_scatter/__init__.py", line 3, in <module>
from .mul import scatter_mul
File "/Users/piero/Development/mgraph/mgvenv/lib/python3.7/site-packages/torch_scatter/mul.py", line 3, in <module>
from torch_scatter.utils.ext import get_func
File "/Users/piero/Development/mgraph/mgvenv/lib/python3.7/site-packages/torch_scatter/utils/ext.py", line 2, in <module>
import torch_scatter.scatter_cpu
ImportError: dlopen(/Users/piero/Development/mgraph/mgvenv/lib/python3.7/site-packages/torch_scatter/scatter_cpu.cpython-37m-darwin.so, 2): Symbol not found: __ZN6caffe26detail37_typeMetaDataInstance_preallocated_29E
Referenced from: /Users/piero/Development/mgraph/mgvenv/lib/python3.7/site-packages/torch_scatter/scatter_cpu.cpython-37m-darwin.so
Expected in: flat namespace
in /Users/piero/Development/mgraph/mgvenv/lib/python3.7/site-packages/torch_scatter/scatter_cpu.cpython-37m-darwin.so
If you suspect this is an IPython bug, please report it at:
https://github.com/ipython/ipython/issues
or send an email to the mailing list at [email protected]
You can print a more detailed traceback right now with "%tb", or use "%debug"
to interactively debug it.
Extra-detailed tracebacks for bug-reporting purposes can be enabled via:
%config Application.verbose_crash=True
If it is helpful, the python version is 3.7.3
Attatching the log for the installation of torch-sparse on MacOS:
log.txt
from pytorch_scatter.
rusty1s
commented on June 27, 2024
Related to pyg-team/pytorch_geometric#18.
from pytorch_scatter.
seanie12
commented on June 27, 2024
@kwohlfahrt can you tell me how to clear pip cache in linux ubuntu?
from pytorch_scatter.
rusty1s
commented on June 27, 2024
Can you show me the installation log of torch-sparse? This also might indicate a mismatch of CUDA versions, so you should check this.
from pytorch_scatter.
w4nderlust
commented on June 27, 2024
Did it several time, also using --no-cache, and also recreating a new environment. Had no luck unfortunately.
from pytorch_scatter.
rusty1s
commented on June 27, 2024
Which gcc version are you using?
from pytorch_scatter.
w4nderlust
commented on June 27, 2024
Configured with: --prefix=/Library/Developer/CommandLineTools/usr --with-gxx-include-dir=/Library/Developer/CommandLineTools/SDKs/MacOSX10.14.sdk/usr/include/c++/4.2.1
Apple LLVM version 10.0.1 (clang-1001.0.46.4)
Target: x86_64-apple-darwin18.7.0
Thread model: posix
InstalledDir: /Library/Developer/CommandLineTools/usr/bin
from pytorch_scatter.
rusty1s
commented on June 27, 2024
To be honest, I do not really know. macOS installation should run fine following pyg-team/pytorch_geometric#18 (comment) and https://twitter.com/xbresson/status/1154686843130011649?s=21. For Ubuntu, your error message sounds CUDA related, as it finds scatter_cpu, but not scatter_cuda.
from pytorch_scatter.
w4nderlust
commented on June 27, 2024
Not using conda unfortunately, both mac and ubuntu.
The version of gcc under ubuntu is 7.4.0 by the way, and cuda is 10.1
Anyway, thank you for your help, much appreciated.
from pytorch_scatter.
q1221sr
commented on June 27, 2024
import torch
from torch_scatter import scatter_max
Traceback (most recent call last):
File "", line 1, in
File "/home/ahyun/anaconda3/envs/py36torch040/lib/python3.6/site-packages/torch_scatter/init.py", line 3, in
from .mul import scatter_mul
File "/home/ahyun/anaconda3/envs/py36torch040/lib/python3.6/site-packages/torch_scatter/mul.py", line 3, in
from torch_scatter.utils.ext import get_func
File "/home/ahyun/anaconda3/envs/py36torch040/lib/python3.6/site-packages/torch_scatter/utils/ext.py", line 2, in
import scatter_cpu
ImportError: /home/ahyun/anaconda3/envs/py36torch040/lib/python3.6/site-packages/scatter_cpu.cpython-36m-x86_64-linux-gnu.so: undefined symbol: _ZN2at6detail20DynamicCUDAInterface10set_deviceEI tried install w/ both pytorch v 0.4.0 and 0.4.1, via pip and source and get the same error How do I resolve this issue?
hey, guys
just do it in your conda env!
pip uninstall torch-sparse
pip install torch-sparse==0.6.0
not 0.6.12!
from pytorch_scatter.
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from pytorch_scatter.