scanpy update incompatibility
bjstewart1 opened this issue · comments
calling bbknn either from scanpy.external (or bbknn direct) yields:
Error in py_call_impl(callable, dots$args, dots$keywords) : AttributeError: 'tuple' object has no attribute 'tocsr'
this is reported on scanpy scverse/scanpy#1249 where the solution maybe is downgrading umap, but that's not ideal...
umap-learn 0.4.3 bbknn 1.3.4 scanpy 1.5.1 anndata 0.7.3
Any ideas?
The solution is instead upgrading bbknn. The exact fix needed has been introduced in 1.3.8.