I’m a relatively new user of fmriprep, which I have found to be fantastic so far. I’ve been working with IT support at my school to upgrade from v0.6.6 to v.1.0.3 on our cluster. We were able to get v0.6.6 to work after a bit of trial-and-error, but we’re hitting a snag with v.1.0.3. Specifically, while it seems as though all of the processing steps may be running correctly with v.1.0.3, we have not been able to get the html report to be generated properly. At first, it looked like we were having an issue because svgo and cwebp were not installed and set up. However, they have been installed and added to the path, but the html reports are still missing information. For example, the image displaying the corrected anatomical T1 image registered into MNI space, both in the html report and when the svg is opened directly in a browser. Here is a sample t1_2_mni svg:
It looks like the registration was performed correctly when I view the nii file. Also, the frames displaying the images in the html report are truncated relative to what I was getting with v0.6.6
Does anyone have suggestions for how we might be able to fix or troubleshoot the issue?
Thanks very much for your help.