Batch labels misaligned after `spin`

[atharva-bhagwat]

Hi,

I am using a merged anndata object and passing the batch_key to the spin function. However, after spin the batch labels are misaligned.

Upon further debugging I think this line is causing the issue.

spin/src/spin/spin.py

Line 225 in af57fbe

adata = sc.concat(adatas, keys=batch_labels, label=batch_key, join='inner')

Changing it to:

adata = sc.concat(adatas, keys=batch_labels, label=None, join='inner')

seems to work.

Thanks!