Help with scvelo

Question

[Chris]

Hi Biostars,

I try to use scvelo but got this error message:

scv.tl.velocity_graph(adata)

ValueError: setting an array element with a sequence. The requested array has an inhomogeneous shape after 2 dimensions. The detected shape was (1, 4) + inhomogeneous part.

This is a math error but not sure how to fix it. Would you please have a suggestion? Thank you so much and have a nice week!

[andres.firrincieli]

I bet you already tried this

Answer 1

[Prakki Rama]

I had same issue.

But this resolved my error:

conda create -n scvelo_env python=3.9
conda activate scvelo_env
conda install numpy scipy cython numba matplotlib scikit-learn h5py click
pip install notebook
pip install scanpy
pip install leidenalg
pip install scvelo
pip install pandas==1.1.5 
pip install numpy==1.21.1