FMRIPREP finishes with an error, and weird red contour

I get some weird errors with fmriprep and have no clue what it means.

I have all the output that I would expect in my output directory, although visual inspection has led to some weird red contours for the ROIs in BOLD space, although my hunch is that this is unrelated to the errors above. Should I be concerned about the weird red lines for the z=80 slice?

If you have any ideas about either of these concerns, please let me know.

Hi @PaulScotti,

Those you are seeing are just warnings. It seems to me that fMRIPrep finished correctly. I agree that the last line is quite misleading Sentry is attempting to send 1 pending error messages. We’ll look into that.

Regarding the red contour, that is a bug in visualization. We are currently working on that one.

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Ok, thanks very much for the reassurance @oesteban! I’m very happy it looks to you that everything finished correctly!

I would also check if there are no errors reported in the “Errors” section of the HTML report.


Hi @PaulScotti, in the upcoming version 1.3.0 of fMRIPrep we have addressed the issue of those weird contours. Check it out!


Awesome! Definitely will check it out!