Problems with importing for new, Tutorial: Perturbation simulation

[finncreeggan]

Describe the bug
I am having a problem importing a module 'scenicplus.dimensionality_reduction'. I am running the basic Perturbation simulation tutorial with the most recent version of scenicplus.

To Reproduce
from scenicplus.simulation import (
train_gene_expression_models,
simulate_perturbation,
plot_perturbation_effect_in_embedding
)

Error output

ModuleNotFoundError Traceback (most recent call last)
Cell In[6], line 1
----> 1 from scenicplus.simulation import (
2 train_gene_expression_models,
3 simulate_perturbation,
4 plot_perturbation_effect_in_embedding
5 )

File ~/miniconda3/envs/scenicplus/lib/python3.11/site-packages/scenicplus/simulation.py:12
9 from scipy.stats import norm as normal
11 from .eregulon_enrichment import score_eRegulons
---> 12 from .dimensionality_reduction import plot_metadata_given_ax
13 import matplotlib.pyplot as plt
14 import logging

ModuleNotFoundError: No module named 'scenicplus.dimensionality_reduction'

Expected behavior
i expected all the modules to be loaded andbe in scenicplus

screenshot

Version:

• Python: 3.11.8
• SCENIC+: 1.0a1

[SeppeDeWinter]

Hi @finncreeggan

Are you sure that you installed the newest version of SCENIC+ from GitHub?
The code that produces the error you are showing does not exist anymore in the main branch of SCENIC+.

Please pull the newest code and try to reinstall.

All the best,

Seppe

[GayaniSene]

Even with the newest version, this doesn't seem to be working.