search

theislab / scgen

Single cell perturbation prediction
https://scgen.readthedocs.io
GNU General Public License v3.0
260 stars 52 forks source link

FutureWarning: is_categorical is deprecated and will be removed in a future version. Use is_categorical_dtype instead if not is_categorical(df_full[k]): #33

Closed levinhein closed 3 years ago

levinhein commented 3 years ago

Hello. I am running scGen on my project in Jupyter notebook then when I run the prediction part, I got a "FutureWarning". I wonder what this means and does it affect my scGen run and how to resolve it if it does? Thank you!

SCRIPT: unperturbed_cd4t = train[((train.obs["cell_type"] == "CD4T") & (train.obs["condition"] == "control"))] PROMPT:

/home/levinbioinformatics/anaconda3/envs/scgen_test/lib/python3.7/site-packages/anndata/_core/anndata.py:1094: FutureWarning: is_categorical is deprecated and will be removed in a future version.  Use is_categorical_dtype instead
  if not is_categorical(df_full[k]):
M0hammadL commented 3 years ago

Hi

We have released a new PyTorch version of the code. Please use this version.

Best Mo