Can't load regulons - Githubissues

anikaliu commented 3 years ago

Hello:) I'm having trouble loading regulons (for all levels/organisms) and it seems to be related to the filepath? Is this something I can fix from my side?

Cheers, Anika

>>> import dorothea
>>> regulons = dorothea.load_regulons(levels=['A','B','C'],organism='Mouse')
Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
  File "/home/al862/anaconda3/envs/scanpy_cellrank/lib/python3.8/site-packages/dorothea/dorothea.py", line 57, in load_regulons
    df = pickle.load(open(path, "rb" ))
  File "pandas/_libs/internals.pyx", line 572, in pandas._libs.internals.BlockManager.__cinit__
TypeError: __cinit__() takes at least 2 positional arguments (0 given)

PauBadiaM commented 3 years ago

Hi @anikaliu !

Wow this is a new one haha Can I ask what versions of python, pandas and pickle are you running?

Cheers!

anikaliu commented 3 years ago

Hey @PauBadiaM,

Haha yes sorry about that:D Thanks for the pointer to package versions! I'm using Python 3.8.5 but found here that the pandas version was the problem. It was 1.3.0 before and now it's working fine after upgrading to 1.3.1. :)

PauBadiaM commented 3 years ago

Perfect! I will add pandas 1.3.1 as a requirement.

saezlab / dorothea-py

Can't load regulons #6