NetworkX Version

[stevencox]

Hi Folks,

I'm using NDEx via the ndex2 Python client but I can't include the functionality in my pip installable deliverable.

My code uses Networkx 2.2 but ndex2 relies on a 1.x version.

Will there be a new release soon with a more modern NetworkX?

[agary-ucsd]

HI Steve, thanks for posting this. We are releasing a new version this week that will lift the dependance on V1.11 of networkx. I'll ping you when we release.

[stevencox]

Great. Thanks.

[agary-ucsd]

Hey Steve, we released a new networkx 2.x compatible version. The latest version is 2.0.0.1. A few things changed internally in this version, but hopefully it won't break your code. Here is our latest documentation:

http://www.home.ndexbio.org/ndex2-sphinx/docs/ndex2.html

https://github.com/ndexbio/ndex-jupyter-notebooks/blob/master/notebooks/NiceCX%20v2.0%20Tutorial.ipynb

Thanks, Aaron

[stevencox]

Thanks @agary-ucsd - that's good news.

Interestingly, it doesn't throw any errors. But it also doesn't create the network.

Here are screenshots with details.

Details from one of the above errors:

What do you think?

[agary-ucsd]

It appears that it didn't create any nodes, but it's hard to tell why. Can you share your code? My email is agary@ucsd.edu.

Thx

[stevencox]

My bad. Something upstream had changed. The new client works great with with my old code. No changes required. Thanks.

[zachary822]

NetworkX has dropped support for python 2 after version 2.2. Either lock NetworkX version to <= 2.2 or drop python 2 support for this package as well?

[coleslaw481]

Thanks for letting me know. I missed the note about dropping python 2 for networkx 2.3.

I'm hoping to avoid locking the networkx version and instead just have this client check the version of networkx and act appropriately.