Closed vtosevski closed 3 years ago
IndexMixin
is not available in scipy.sparse.sputils
from 1.3 and above. Downgrade scipy to 1.2.x should solve the problem. Alternatively, try identify which package is asking for IndexMixin
during import anndata
(e.g. do it in python).
Thanks, that indeed solves the issue! Best, Vinko
Hello everyone, I am having issues running sceasy for conversion from sce object to anndata. Following repo instructions, I run:
and get
My sceasy environment contains recommended versions of anndata and loompy, and newest version of scipy:
I tried upgrading to anndata==0.7.1 as recommended in https://github.com/cellgeni/sceasy/issues/7 but that had no effect. I am on Ubuntu 20.04 Is there a solution to this problem? Thanks, Vinko