SpaGCN
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Reproduction issue on tutorial: error at the steps with louvain algorithm
Hi Dr. Hu,
I want to reproduce results via SpaGCN in the given tutorial (https://github.com/jianhuupenn/SpaGCN/blob/master/tutorial/tutorial.ipynb). However, I got error “BaseException: Could not construct partition: vector” which seems in the steps using Louvain algorithm.
Can you please provide any help to solve this problem?
Thanks,
Thanks for your interest in SpaGCN. If you are running on the toy data and got this error, I believe it is because of the support package versions. Could you check the package version, especially for louvain and scanpy? A list of tested environments can be found here: https://github.com/jianhuupenn/SpaGCN#versions-the-software-has-been-tested-on
Hi Dr.Hu,
Thanks for your reply. I checked all packages version as below, the error still exists. BTW: my computer system is macOS Monterey Apple M1 Pro
System: Anaconda Python: 3.10.4 Python packages: pandas = 1.5.0, numpy = 1.23.3, python-igraph=0.10.1, torch=1.12.1, louvain=0.7.1, scipy = 1.9.2, scanpy = 1.9.1, anndata = 0.8.0, natsort = 8.2.0, scikit-learn = 1.1.2