[Freesurfer] Synthstrip error in FS v. 8.0.0 beta

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Hello Developers,

I was attempting to test out the beta version of 8.0.0 and I recognize that this is on-going development. I installed it in a Singularity image running Ubuntu 22.04. Getting recon-all to run at all requires setting an environmental variable (FS_ALLOW_DEEP=1), which I did and recon-all launches. However, it crashes very quickly. In short, orig/001.mgz is created and then it immediately attempts to run mri_synthstrip on orig.mgz, which does not exist yet. See attached logs.

Adam C. Raikes, PhD

Imaging Projects Manager

Center for Innovation in Brain Science

University of Arizona