pypath issue with create_knowledge_graph.py

[Ojami]

Hi,

I ran into two similar posts #10 and #4 . I get both errors depending on which pypath I try:

If

> pip show pypath-omnipath
Name: pypath-omnipath
Version: 0.15.13

Then error is TypeError: object of type 'NoneType' has no len().

If I try:

>  pip show pypath-omnipath                             
Name: pypath-omnipath
Version: 0.16.19

The error is AttributeError: module 'pypath.share.settings' has no attribute 'context'.

I appreciate your help!
Best/Oveis

[dbdimitrov]

Hi @Ojami,

We just merged a PR, where I use a frozen fork of pypath that should work:
git+https://github.com/dbdimitrov/pypath.git@metalinks

I've also tried multiple pypath versions in the past, and had a similar experience to you, so I just fixed a version that works.

You can check the env.yml file for the full env info.

Hope this helps!