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gdevenyi avatar gdevenyi commented on June 15, 2024 1

(This may be a documentation issue if it is only included in fMRI task, which is correct)

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gdevenyi avatar gdevenyi commented on June 15, 2024

These are recommended in the context of fMRI task:
https://bids-specification.readthedocs.io/en/stable/04-modality-specific-files/01-magnetic-resonance-imaging-data.html#fmri-task-information

Are they being included when the MRI is not labelled task? Otherwise, I think the requirement here is the json helper is supposed to be edited to provide the missing fields before the BIDS is generated.

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ycAbout avatar ycAbout commented on June 15, 2024

I checked a couple .json for non bold scans, it seems that they were not included (in our example dataset). In either case, I think a default value that passes the validator should be generated automatically if user did not specify any value. I will look into it.
It's also a good idea to mention it in documentation as well.

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dvm-shlee avatar dvm-shlee commented on June 15, 2024

The CogAtlasID and CogPOID seems recommended not mandatory,
It may be resolved by updating

https://github.com/BrkRaw/bruker/blob/0d387c62d81f64ee712476b73795727c618028e2/brkraw/lib/reference.py#L220

to be an empty string if this could work?

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ycAbout avatar ycAbout commented on June 15, 2024

You have to put something like "https://www.cognitiveatlas.org/fillYourID" to make it work. I made a PR for it.

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