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aertslab / scenicplus

SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) and single-cell chromatin accessibility (scATAC-seq) data.
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ImportError #83

Closed klgoss closed 1 year ago

klgoss commented 1 year ago

Hello, thanks for creating this wonderful tool!

I installed SCENIC+ in a conda environment on HPC. When trying from scenicplus.scenicplus_class import SCENICPLUS, create_SCENICPLUS_object , I keep getting an import error: ImportError: /storage/home/hcoda1/1/kgoss8/.conda/envs/scenicplus/lib/python3.8/site-packages/ncls/src/ncls.cpython-38-x86_64-linux-gnu.so: undefined symbol: __intel_sse2_strchr . My python version is 3.8.15 and SCENIC+ version is 0.1.dev456+g9662363. Has anyone else encountered this issue?

SeppeDeWinter commented 1 year ago

Hi

This does not look like a SCENIC+ specific problem. It looks like something went wrong while compiling cython.

This stack-overflow question might help: https://stackoverflow.com/questions/49524083/importing-any-module-in-cython-file-gives-undefined-symbol-error

Best,

Seppe