[BUG]from pyscenic.rnkdb import FeatherRankingDatabase as RankingDatabase

[CCCKW]

Describe the bug Package doesnt have this modle

ModuleNotFoundError: No module named 'pyscenic.rnkdb'

[ghuls]

pyscenic.rnkdb only exists in older pySCENIC releases (before 0.12).

The recommended way to use pySCENIC is via the command line interface: https://pyscenic.readthedocs.io/en/latest/installation.html#docker-podman

If you need something similar to pyscenic.rnkdb to read the databases for whatever reason, take a look at: https://github.com/aertslab/ctxcore/blob/main/src/ctxcore/ctdb.py

[GeneVector5]

pyscenic.rnkdb only exists in older pySCENIC releases (before 0.12).

The recommended way to use pySCENIC is via the command line interface: https://pyscenic.readthedocs.io/en/latest/installation.html#docker-podman

If you need something similar to pyscenic.rnkdb to read the databases for whatever reason, take a look at: https://github.com/aertslab/ctxcore/blob/main/src/ctxcore/ctdb.py

What function would we use if we wanted to replicate the steps shown in the pySCENIC - Full pipeline.ipynb notebook?

[AnjaliS1]

Where is the updated tutorial for pyscenic? I have also run into the same error whilst using pySCENIC - Full pipeline.ipynb notebook

[eregenyi]

Could you please update the tutorials? I am running into the same issue.

[jkfo002]

Could import from ctxcore like from ctxcore.rnkdb import FeatherRankingDatabase as RankingDatabase