UserWarning: An issue occurred while importing 'pyg-lib'. Disabling its usage. Stacktrace: /lib64/libm.so.6: version `GLIBC_2.27' not found

[Dengsongquanch]

🐛 Describe the bug

when I import pyg_lib,there occurs an error:
UserWarning: An issue occurred while importing 'pyg-lib'. Disabling its usage. Stacktrace: /lib64/libm.so.6: version `GLIBC_2.27' not found (required by /public/home/yika/miniforge3/envs/deepH3/lib/python3.9/site-packages/libpyg.so)
I found that upgrade glibc can solve this problem. But glibc is a fundamental package, upgrade it may cause some very serious errors. So I want to know if there are any other solutions available.

Environment

• pyg-lib version:0.4.0+pt112cu116
• PyTorch version:1.12.0+cu116
• OS:CentOS Linux 7 (Core)
• Python version:3.9
• CUDA/cuDNN version:cuda11.6，cudnn8.3.2
• How you installed PyTorch and pyg-lib (conda, pip, source):conda
• Any other relevant information:

[Dengsongquanch]

My environment is below

packages in environment at /public/home/yika/miniforge3/envs/deepH3:

Name Version Build Channel

_libgcc_mutex 0.1 conda_forge conda-forge
_openmp_mutex 4.5 2_gnu conda-forge
absl-py 2.1.0 pypi_0 pypi
aiohappyeyeballs 2.4.3 pypi_0 pypi
aiohttp 3.10.10 pypi_0 pypi
aiosignal 1.3.1 pypi_0 pypi
async-timeout 4.0.3 pypi_0 pypi
attrs 24.2.0 pypi_0 pypi
aws-c-auth 0.7.4 h1083cbe_2 conda-forge
aws-c-cal 0.6.2 h09139f6_2 conda-forge
aws-c-common 0.9.3 hd590300_0 conda-forge
aws-c-compression 0.2.17 h184a658_3 conda-forge
aws-c-event-stream 0.3.2 h6fea174_2 conda-forge
aws-c-http 0.7.13 hb59894b_2 conda-forge
aws-c-io 0.13.33 h161b759_0 conda-forge
aws-c-mqtt 0.9.7 h55cd26b_0 conda-forge
aws-c-s3 0.3.17 hfb4bb88_4 conda-forge
aws-c-sdkutils 0.1.12 h184a658_2 conda-forge
aws-checksums 0.1.17 h184a658_2 conda-forge
aws-crt-cpp 0.24.2 ha28989d_2 conda-forge
aws-sdk-cpp 1.10.57 hec69fbc_24 conda-forge
blas 1.0 mkl defaults
blosc 1.21.4 h0f2a231_0 conda-forge
brotli 1.1.0 hb9d3cd8_2 conda-forge
brotli-bin 1.1.0 hb9d3cd8_2 conda-forge
brotli-python 1.0.9 py39h6a678d5_8 defaults
bzip2 1.0.8 h5eee18b_6 defaults
c-ares 1.32.3 h4bc722e_0 conda-forge
ca-certificates 2024.9.24 h06a4308_0 defaults
certifi 2024.8.30 py39h06a4308_0 defaults
charset-normalizer 3.3.2 pyhd3eb1b0_0 defaults
colorama 0.4.6 pyhd8ed1ab_0 conda-forge
contourpy 1.3.0 py39h74842e3_2 conda-forge
cycler 0.12.1 pyhd8ed1ab_0 conda-forge
deeph 0.2.2 pypi_0 pypi
deeph-e3 0.1 pypi_0 pypi
dill 0.3.9 pypi_0 pypi
e3nn 0.3.5 pypi_0 pypi
fonttools 4.54.1 py39h8cd3c5a_0 conda-forge
freetype 2.10.4 h0708190_1 conda-forge
frozenlist 1.5.0 pypi_0 pypi
fsspec 2024.10.0 pypi_0 pypi
future 0.18.3 py39h06a4308_0 defaults
giflib 5.2.2 hd590300_0 conda-forge
gmp 6.3.0 hac33072_2 conda-forge
gmpy2 2.1.5 py39h7196dd7_2 conda-forge
googledrivedownloader 0.4 pypi_0 pypi
grpcio 1.66.2 pypi_0 pypi
h5py 3.12.1 pypi_0 pypi
hdf4 4.2.15 h9772cbc_5 conda-forge
hdf5 1.14.3 nompi_hdf9ad27_105 conda-forge
icu 73.2 h59595ed_0 conda-forge
idna 3.7 py39h06a4308_0 defaults
importlib-resources 6.4.5 pyhd8ed1ab_0 conda-forge
importlib_resources 6.4.5 pyhd8ed1ab_0 conda-forge
intel-openmp 2021.4.0 h06a4308_3561 defaults
isodate 0.6.1 pypi_0 pypi
joblib 1.4.2 pyhd8ed1ab_0 conda-forge
jpeg 9e h0b41bf4_3 conda-forge
keyutils 1.6.1 h166bdaf_0 conda-forge
kiwisolver 1.4.7 py39h74842e3_0 conda-forge
krb5 1.20.1 h81ceb04_0 conda-forge
latexcodec 2.0.1 pyh9f0ad1d_0 conda-forge
lcms2 2.12 hddcbb42_0 conda-forge
ld_impl_linux-64 2.40 h12ee557_0 defaults
lerc 3.0 h9c3ff4c_0 conda-forge
libaec 1.1.3 h59595ed_0 conda-forge
libblas 3.9.0 12_linux64_mkl conda-forge
libbrotlicommon 1.1.0 hb9d3cd8_2 conda-forge
libbrotlidec 1.1.0 hb9d3cd8_2 conda-forge
libbrotlienc 1.1.0 hb9d3cd8_2 conda-forge
libcblas 3.9.0 12_linux64_mkl conda-forge
libcurl 8.9.1 h251f7ec_0 defaults
libdeflate 1.10 h7f98852_0 conda-forge
libedit 3.1.20191231 he28a2e2_2 conda-forge
libev 4.33 hd590300_2 conda-forge
libffi 3.4.4 h6a678d5_1 defaults
libgcc 14.2.0 h77fa898_1 conda-forge
libgcc-ng 14.2.0 h69a702a_1 conda-forge
libgfortran 14.1.0 h69a702a_1 conda-forge
libgfortran-ng 14.1.0 h69a702a_1 conda-forge
libgfortran5 14.1.0 hc5f4f2c_1 conda-forge
libgomp 14.2.0 h77fa898_1 conda-forge
libiconv 1.17 hd590300_2 conda-forge
liblapack 3.9.0 12_linux64_mkl conda-forge
libnetcdf 4.9.2 nompi_h9db66fd_110 conda-forge
libnghttp2 1.58.0 h47da74e_1 conda-forge
libnsl 2.0.0 h5eee18b_0 defaults
libopenblas 0.3.21 h043d6bf_0 defaults
libpng 1.6.37 h21135ba_2 conda-forge
libssh2 1.11.0 h0841786_0 conda-forge
libstdcxx 14.2.0 hc0a3c3a_1 conda-forge
libstdcxx-ng 14.2.0 h4852527_1 conda-forge
libtiff 4.3.0 h0fcbabc_4 conda-forge
libuuid 2.32.1 h7f98852_1000 conda-forge
libwebp 1.2.2 h3452ae3_0 conda-forge
libwebp-base 1.2.2 h7f98852_1 conda-forge
libxc 6.2.2 cpu_h5ef0af7_6 conda-forge
libxc-c 6.2.2 cpu_h20a523f_6 conda-forge
libxcb 1.13 h7f98852_1004 conda-forge
libxml2 2.12.7 hc051c1a_1 conda-forge
libzip 1.10.1 h2629f0a_3 conda-forge
libzlib 1.2.13 h4ab18f5_6 conda-forge
lua 5.4.6 h9627803_0 conda-forge
lz4-c 1.9.4 hcb278e6_0 conda-forge
markdown 3.7 pypi_0 pypi
markupsafe 3.0.2 pypi_0 pypi
matplotlib-base 3.9.2 py39hbfdbfaf_0 defaults
mkl 2021.4.0 h06a4308_640 defaults
mkl-service 2.4.0 py39h7f8727e_0 defaults
mkl_fft 1.3.1 py39hd3c417c_0 defaults
mkl_random 1.2.2 py39h51133e4_0 defaults
monty 2024.7.30 pyhd8ed1ab_0 conda-forge
mpc 1.3.1 h24ddda3_1 conda-forge
mpfr 4.2.1 h90cbb55_3 conda-forge
mpmath 1.3.0 pyhd8ed1ab_0 conda-forge
multidict 6.1.0 pypi_0 pypi
multiprocess 0.70.17 pypi_0 pypi
munkres 1.1.4 pyh9f0ad1d_0 conda-forge
ncurses 6.4 h6a678d5_0 defaults
netcdf-fortran 4.6.1 nompi_h22f9119_106 conda-forge
networkx 3.2.1 pyhd8ed1ab_0 conda-forge
numpy 1.24.3 py39h14f4228_0 defaults
numpy-base 1.24.3 py39h31eccc5_0 defaults
openjpeg 2.5.0 h7d73246_0 conda-forge
openssl 3.3.2 hb9d3cd8_0 conda-forge
opt-einsum 3.4.0 pypi_0 pypi
opt-einsum-fx 0.1.4 pypi_0 pypi
packaging 24.1 py39h06a4308_0 defaults
palettable 3.3.3 pyhd8ed1ab_0 conda-forge
pandas 2.2.3 py39h3b40f6f_1 conda-forge
pathos 0.3.3 pypi_0 pypi
pillow 9.1.1 py39hae2aec6_0 conda-forge
pip 24.2 py39h06a4308_0 defaults
platformdirs 3.10.0 py39h06a4308_0 defaults
plotly 5.24.1 pyhd8ed1ab_0 conda-forge
pooch 1.7.0 py39h06a4308_0 defaults
pox 0.3.5 pypi_0 pypi
ppft 1.7.6.9 pypi_0 pypi
propcache 0.2.0 pypi_0 pypi
protobuf 5.28.2 pypi_0 pypi
psutil 6.0.0 pypi_0 pypi
pthread-stubs 0.4 hb9d3cd8_1002 conda-forge
pybind11-abi 4 hd3eb1b0_1 defaults
pybtex 0.24.0 pyhd8ed1ab_2 conda-forge
pyg-lib 0.4.0+pt112cu116 pypi_0 pypi
pymatgen 2024.8.9 py39hb9c10d8_0 conda-forge
pyparsing 3.1.4 pyhd8ed1ab_0 conda-forge
pysocks 1.7.1 py39h06a4308_0 defaults
python 3.9.12 h2660328_1_cpython conda-forge
python-dateutil 2.9.0 pyhd8ed1ab_0 conda-forge
python-louvain 0.16 pypi_0 pypi
python-tzdata 2024.2 pyhd8ed1ab_0 conda-forge
python_abi 3.9 5_cp39 conda-forge
pytz 2024.1 pyhd8ed1ab_0 conda-forge
pyyaml 6.0.2 py39h8cd3c5a_1 conda-forge
rdflib 7.0.0 pypi_0 pypi
readline 8.2 h5eee18b_0 defaults
requests 2.32.3 py39h06a4308_0 defaults
ruamel.yaml 0.18.6 py39hd1e30aa_0 conda-forge
ruamel.yaml.clib 0.2.8 py39hd1e30aa_0 conda-forge
s2n 1.3.54 h06160fa_0 conda-forge
scikit-learn 1.5.2 pypi_0 pypi
scipy 1.13.1 pypi_0 pypi
setuptools 75.1.0 py39h06a4308_0 defaults
siesta 5.0.1 nompi_ha48f1ba_1001 conda-forge
six 1.16.0 pyhd3eb1b0_1 defaults
snappy 1.1.10 hdb0a2a9_1 conda-forge
spglib 2.5.0 py39h3ccf219_2 conda-forge
sqlite 3.38.2 hc218d9a_0 defaults
sympy 1.13.3 pypyh2585a3b_103 conda-forge
tabulate 0.9.0 pyhd8ed1ab_1 conda-forge
tenacity 9.0.0 pyhd8ed1ab_0 conda-forge
tensorboard 2.18.0 pypi_0 pypi
tensorboard-data-server 0.7.2 pypi_0 pypi
threadpoolctl 3.5.0 pypi_0 pypi
tk 8.6.12 h27826a3_0 conda-forge
torch 1.12.0+cu116 pypi_0 pypi
torch-cluster 1.6.0+pt112cu116 pypi_0 pypi
torch-geometric 2.6.1 pypi_0 pypi
torch-scatter 2.1.0+pt112cu116 pypi_0 pypi
torch-sparse 0.6.16+pt112cu116 pypi_0 pypi
torch-spline-conv 1.2.1+pt112cu116 pypi_0 pypi
torchvision 0.13.0+cu116 pypi_0 pypi
tqdm 4.66.5 pyhd8ed1ab_0 conda-forge
typing-extensions 4.11.0 py39h06a4308_0 defaults
typing_extensions 4.11.0 py39h06a4308_0 defaults
tzdata 2024b h04d1e81_0 defaults
uncertainties 3.2.2 pyhd8ed1ab_1 conda-forge
unicodedata2 15.1.0 py39hd1e30aa_0 conda-forge
urllib3 2.2.3 py39h06a4308_0 defaults
werkzeug 3.0.4 pypi_0 pypi
wheel 0.44.0 py39h06a4308_0 defaults
xdeeph 0.1 pypi_0 pypi
xorg-libxau 1.0.11 hb9d3cd8_1 conda-forge
xorg-libxdmcp 1.1.5 hb9d3cd8_0 conda-forge
xz 5.4.6 h5eee18b_1 defaults
yaml 0.2.5 h7f98852_2 conda-forge
yarl 1.17.1 pypi_0 pypi
zipp 3.20.2 pyhd8ed1ab_0 conda-forge
zlib 1.2.13 h4ab18f5_6 conda-forge
zstd 1.5.2 h8a70e8d_1 conda-forge