🐛 Bug: Model `eos3d3r`: Type error while fetching

[Zainab-ik]

Describe the bug.

The model eos3d3r repeatedly fails while fetching using the ersilia -v fetch eos3d3r > eos3d3rE.log 2>&1 . It produces an error stating:

TypeError: expected str, bytes or os.PathLike object, not NoneType @GemmaTuron

Describe the steps to reproduce the behavior

• open WSL
• activate ersilia environment
• run ersilia -v fetch eos3d3r > eos3d3rE.log 2>&1

Expected behavior.

Fetch model successfully.

Screenshots.

eos3d3rE.log Log file of model

Operating environment

Ubuntu 20.04.1 LTS Windows 11

Additional context

No response

[GemmaTuron]

Hello @Zainab-ik

As you can see in the log you get repeated times the following notification for the initial packages installed (pandas, rdkit and WARNING: Retrying (Retry(total=3, connect=None, read=None, redirect=None, status=None)) after connection broken by 'NewConnectionError('<pip._vendor.urllib3.connection.HTTPSConnection object at 0x7f233b707fd0>: Failed to establish a new connection: [Errno -2] Name or service not known')': /simple/pandas/

If you search a bit the internet you will see this is related to your internet setup, either a VPN or a proxy network error. Do you know if you are using any of these?

[GemmaTuron]

I also wanted to share this, maybe it helps! https://stackoverflow.com/questions/52815784/python-pip-raising-newconnectionerror-while-installing-libraries

[Zainab-ik]

@GemmaTuron Thank you, I don't use VPN but it's most likely due to Proxy network, according to the article, it suggests changing the network settings. So I'd do that and rerun my model.

[GemmaTuron]

Hi @Zainab-ik As we have discussed in Slack, for this issue and also #350 #349 let's use Google Colab

[Zainab-ik]

@GemmaTuron I was able to run this in colab and uploaded my CSV to the drive. It still doesn't work in the CLI though.

[Zainab-ik]

This works on CLI now,, check issue #372