Unknown option `show-origin' with bidsmri2nidm using NIDM

Software Support
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1

Summary of what happened:

Running bidsmri2nidm to create a participants.json sidecar for my bids dataset.

Command used (and if a helper script was used, a link to the helper script or the command generated):

In a conda env i installed PyNIDM (pip install pynidm) and Datalad (pip install datalad), and an InterLex API key following David Keators ABCD-repronim slides here (https://youtu.be/-Y-3OBDZJgo?t=1722) and am working with a BIDS directory with what I think is a compliant participants.tsv file and a dataset_description.json

when I run bidsmri2nidm -d bids/ -bidsignore where bids/ is the folder within which my bids dataset is, I get this error:

datalad.runner.exception.CommandError: CommandError: 'git --git-dir=/dev/null config -z -l --show-origin' failed with exitcode 129 [err: 'error: unknown option `show-origin'

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2

Hi @rahul-brito,

Does git config -h show that --show-origin is a expected argument? If you want to try ignoring that argument, you can install your own repo of Datalad, and change line 409 in datalad/config.py.

Best,
Steven

3

Nice point, git config -h does not show --show-origin is a expected argument.

I could try that, but Im going to wait to see if there’s a more supported option before trying any funny business

4

I would make sure git is updated (or maybe rolled back if the feature was taken out), as the option shows up for me (I have git version 2.39.2).

5

ah right. ok updating git with conda install git in my conda env seemed to solve it. It was using a very old version of git installed on the head node of my cluster