### Summary of what happened:

Public dataset: OpenNeuro

freesurfer fails with a seg fault for a single subject (#6), but I can run freesurfer independently successfully. I was under the impression from other forum posts that the runs should be equivalent however I am getting different responses from the two runs. Note from the logs below that there are 190 defects in the fmriprep version vs 39 in the independent freesurfer

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

`docker run --rm -e DOCKER_VERSION_8395080871=24.0.6 -it -v /home/ra/license.txt:/opt/freesurfer/license.txt:ro -v /mnt/h/FMRI_SAMPLE/ds004835-download:/data:ro -v /mnt/h/FMRI_SAMPLE/out:/out -v /home/ra:/scratch nipreps/fmriprep:23.1.4 /data /out participant --participant-label sub-06 -w /scratch2`

Note that a NEW working directory was used to force it to redo the subject

vs freesurfer run independently:

`recon-all -s subj6-fmri-sample -i /mnt/h/FMRI_SAMPLE/ds004835-download/sub-06/anat/sub-06_run-01_T1w.nii.gz -all`

### Version:

23.2.0a2

### Environment (Docker, Singularity, custom installation):

docker in wsl

### Data formatted according to a validatable standard? Please provide the output of the validator:

Yes, the bids-validator was happy with the data

### Relevant log outputs (up to 20 lines):

This is the fmriprep freesurfer log:

```
CORRECTING DEFECT 186 (vertices=27, convex hull=46, v0=597340)
After retessellation of defect 186 (v0=597340), euler #=360 (239876,677443,437927) : difference with theory (-38) = -398
CORRECTING DEFECT 187 (vertices=8, convex hull=23, v0=600259)
After retessellation of defect 187 (v0=600259), euler #=361 (239878,677456,437939) : difference with theory (-37) = -398
CORRECTING DEFECT 188 (vertices=9, convex hull=28, v0=605686)
After retessellation of defect 188 (v0=605686), euler #=362 (239879,677470,437953) : difference with theory (-36) = -398
CORRECTING DEFECT 189 (vertices=5, convex hull=26, v0=610360)
After retessellation of defect 189 (v0=610360), euler #=363 (239879,677476,437960) : difference with theory (-35) = -398
CORRECTING DEFECT 190 (vertices=573370, convex hull=68765, v0=611940)
Segmentation fault
Linux 15913ee0f650 5.15.133.1-microsoft-standard-WSL2 #1 SMP Thu Oct 5 21:02:42 UTC 2023 x86_64 x86_64 x86_64 GNU/Linux
recon-all -s sub-06 exited with ERRORS at Thu Dec 7 13:15:31 UTC 2023
```

This is the output from the freesurfer run independently:

CORRECTING DEFECT 38 (vertices=38, convex hull=59, v0=126206)

After retessellation of defect 38 (v0=126206), euler #=1 (131841,395513,263673) : difference with theory (1) = 0

CORRECTING DEFECT 39 (vertices=5, convex hull=18, v0=132854)

After retessellation of defect 39 (v0=132854), euler #=2 (131841,395517,263678) : difference with theory (2) = 0

computing original vertex metric propertiesâ€¦

storing new metric propertiesâ€¦

computing tessellation statisticsâ€¦

vertex spacing 0.89 Â± 0.25 (0.05â€“>11.98) (max @ vno 87490 â†’ 89274)

face area -nan Â± -nan (1000.00â€“>-1.00)

performing soap bubble on retessellated vertices for 0 iterationsâ€¦

vertex spacing 0.89 Â± 0.25 (0.05â€“>11.98) (max @ vno 87490 â†’ 89274)

face area -nan Â± -nan (1000.00â€“>-1.00)

tessellation finished, orienting corrected surfaceâ€¦

135 mutations (36.7%), 233 crossovers (63.3%), 736 vertices were eliminated

building final representationâ€¦

6107 vertices and 0 faces have been removed from triangulation

after topology correction, eno=2 (nv=131841, nf=263678, ne=395517, g=0)

writing corrected surface to /usr/local/freesurfer/7.4.1/subjects/subj6-fmri-sample/surf/lh.orig.premeshâ€¦

### Screenshots / relevant information:

Very much appreciate your help