Problems with manubot citing from orcid/ auto-cite.py

[Harrisonthow]

Hello,

I'm trying to get auto-cite.py to generate a list of citations based off my PI's ORCID. However every time auto-cite.py runs, I am faced with this error:

Source 47 of 47 - doi:10.1371/journal.pone.0063325

Using Manubot to generate new citation

[Errno 2] No such file or directory: 'manubot'

Manubot could not generate citation

This happens for every source, it says there is no such file/directory as manubot. I have not found any help on the internet so I figured this would be a good place to ask

[vincerubinetti]

Is this the repo in question:
https://github.com/Harrisonthow/Beautiful-quorum

It looks like you are not using auto-cite in the standard way: letting it run automatically with github actions via pull requests or committing to main.

Thus I have to assume you're trying to run auto-cite.py locally on your computer, and you don't have the Manubot package.

Manubot isn't a standard package that comes with Python, so you have to install it via requirements.txt. Please see the (advanced) instructions for building citations locally:
https://github.com/greenelab/lab-website-template/wiki/Advanced-Editing#build-citations-locally

[Harrisonthow]

Hi Vincent, the repo in question is actually this one here (it was previously private)

https://github.com/Harrisonthow/akkaya-lab

would there be any significant differences between my testing one (quorum) and the one that I’m working on?

[vincerubinetti]

I don't think there should be differences... though as a side note, GitHub Pages (what this template uses for hosting the website) charges a fee if you want to host from a private repository.

I am looking at your Akkaya lab repo, and I do not see any of the auto-cite runs failing with the error you posted above. Some of them are failing because your .yaml files are not in the appropriate format (which the error messages tell you), but I don't see any errors complaining that Manubot is not installed. Can you link to the specific place where you saw that error message?