ENH: Conversion from *AcqKnowledge* to BIDS

[oesteban]

This PR concludes the conversion from AcqKnowledge into BIDS:

• Sessions 1-24 have been added to the datalad dataset on curnagl with physio. Exceptions
  • Sessions 2, 12 and 14, which we skipped.
  • Sessions 11 and 13, which have multiple files per session and I will address those later (Convert physio to BIDS - sessions 11 and 13 #324)
  • Session 4, which has AcqKnowledge file but it doesn't seem in a good state (Deep revision of physio of session 4 #325).
• Update SOPs accordingly, including a Jupyter Notebook showing the conversion.

Relates-to: #120.

[oesteban]

Let me sneak this in, otherwise development is super slow

[oesteban]

Jupyter notebook rendered: https://output.circle-artifacts.com/output/job/286f0227-748d-47af-ba4f-91a4b8ecb3ec/artifacts/0/_SOPs_preview/data-management/physio-to-bids/index.html

[acionca]

I just did a quick check for now, here are some suggestions:

• I would suggest renaming the notebook with underscores instead of spaces.

• Also, I tried to mkdocs serve and got the error below, could it be a missing dependancy ?

jinja2.exceptions.UndefinedError: 'mermaid_js' is undefined

EDIT: Looks like there's a known bug with mkdocs-jupyter 0.24.3+ (see danielfrg/mkdocs-jupyter#176) – I would suggest to force using 0.24.2 which worked for me.

• On my local mkdocs serve, the latex math rendering with $ did not render properly (e.g., $t=0$)

[oesteban]

• Also, I tried to mkdocs serve and got the error below, could it be a missing dependancy ?

jinja2.exceptions.UndefinedError: 'mermaid_js' is undefined

I think you need material >= 8.2.0 (https://squidfunk.github.io/mkdocs-material/changelog/#8.2.0)

• On my local mkdocs serve, the latex math rendering with $ did not render properly (e.g., $t=0$)

Let's open an issue for this somewhere else