Intendedfor fmap entry update to accept "bids::sub-xx"

[karl-koschutnig]

Hi experts,
I am a little bit confused and would appreciate any help.
We convert our data with bidscoiner into BIDS. Fieldmaps can be automatically assigned to (for example) DWI-images using the "Intendedfor" tag. As stated in the latest bids-specifications, this would be done as followed:
"IntendedFor": [
"bids::sub-01/ses-pre/func/sub-01_ses-pre_task-motor_run-1_bold.nii.gz",
"bids::sub-01/ses-pre/func/sub-01_ses-pre_task-motor_run-2_bold.nii.gz"]}
The latest bids-validator is happy with this notation !!

However, qsiprepr (19.1) - more precisely the bids-validator provided in that container - doesn't find the referenced images. It took me a while to figure out that the following notation is needed:

"IntendedFor": [
"ses-pre/func/sub-01_ses-pre_task-motor_run-1_bold.nii.gz",
"ses-pre/func/sub-01_ses-pre_task-motor_run-2_bold.nii.gz"]}

So, "bids::sub-xx" should not be used.

Is there a way to fix this problem? Is there anyone else out there having this problem?

Thanks for your help

Karl

[cookpa]

It looks like BIDS URIs are not currently supported for fieldmaps in pybids (#950)

[mattcieslak]

Either way, qsiprep has a very old bids-validator installed and is need of an update.