search

zhoux85 / STAligner

STAligner is a tool for alignment and integration of spatially resolved transcriptomics data.
MIT License
29 stars 5 forks source link

Illlegal instruction #15

Open ulloaa opened 9 months ago

ulloaa commented 9 months ago

Hello, after installing we get the error message below:

>>> import STAligner Traceback (most recent call last): File "<stdin>", line 1, in <module> File ".local/lib/python3.8/site-packages/STAligner-1.0.0-py3.8.egg/STAligner/__init__.py", line 11, in <module> from .ST_utils import match_cluster_labels, Cal_Spatial_Net, Stats_Spatial_Net, mclust_R, ICP_align File ".local/lib/python3.8/site-packages/STAligner-1.0.0-py3.8.egg/STAligner/ST_utils.py", line 6, in <module> from .mnn_utils import create_dictionary_mnn File ".local/lib/python3.8/site-packages/STAligner-1.0.0-py3.8.egg/STAligner/mnn_utils.py", line 5, in <module> from annoy import AnnoyIndex File "STALIGNER/conda/envs/env_STAligner/lib/python3.8/site-packages/annoy/__init__.py", line 16, in <module> from .annoylib import Annoy as AnnoyIndex ImportError: libpmix.so.2: cannot open shared object file: No such file or directory

however, after adding the path of libpmix.so.2 to LD_LIBRARY_PATH we get:

>>> import STAligner Illegal instruction (core dumped)

Could you please provide guidance on how to troubleshoot the above?

Thanks!

zhoux85 commented 8 months ago

Hi. Did you install PyG (PyTorch Geometric) successful? The installation of PyG is tricky, and will cause many errors.

Please refer the package version in https://github.com/zhoux85/STAligner/blob/master/requirement.txt