SUBJECTS_DIR¶
Always pass a DLSurfer-owned --sd unless you intentionally reuse a finished FreeSurfer tree (e.g. TopoFit-only on an existing subject).
$SD/
$SID/
mri/ # orig, aseg*, aparc.DKTatlas+aseg.deep, …
surf/ # white, pial, … (+ optional *.white.topofit)
stats/
scripts/ # logs, dlsurfer_metrics.tsv
label/
Do not point --sd at an active DKT-connectome work tree unless that is an explicit handoff choice. Isolation policy: reference/ISOLATION.md.