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Surface recon determinism #818

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Merged
m-reuter merged 4 commits into from
Jul 1, 2026
Merged

Surface recon determinism #818

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bdc0277
Make surface reconstruction deterministic
ClePol May 13, 2026
cc66fdd
Update recon_surf/recon-surf.sh
ClePol Jun 29, 2026
b93744b
fixing to 1 thread here does not seem to be needed in my experiments …
m-reuter Jul 1, 2026
025dbbd
numexpr is not a dependency here
m-reuter Jul 1, 2026
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13 changes: 11 additions & 2 deletions recon_surf/spherically_project_wrapper.py
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Original file line number Diff line number Diff line change
Expand Up @@ -48,8 +48,19 @@ def setup_options():

if __name__ == "__main__":
import sys
from os import environ
opts = setup_options()

# The spectral projection is sensitive to tiny threaded BLAS/eigensolver
# differences, and those can be amplified by later topology correction.
for var in (
"OMP_NUM_THREADS",
"OPENBLAS_NUM_THREADS",
"MKL_NUM_THREADS",
"VECLIB_MAXIMUM_THREADS",
):
environ[var] = "1"

# identify whether sksparse is installed (in which case we can use_cholmod in LaPy
try:
# ignore ruff F401 (unused import)
Expand All @@ -59,8 +70,6 @@ def setup_options():
has_sksparse = False
# First try to run standard spherical project
try:
from os import environ

from recon_surf.spherically_project import spherically_project_surface

source_surface = opts.sd / opts.subject / "surf" / f"{opts.hemi}.smoothwm.nofix"
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