This is because of a change in the C API starting in numpy
1.20.0<https://numpy.org/doc/stable/release/1.20.0-notes.html#size-of-np-ndarray-and-np-void-changed>.
You likely have a numpy version <1.20.0 installed in your python environment.
Can you upgrade your numpy installation and try synthsr again:
fspython -m pip install numpy==1.20.3
Best,
Avnish
________________________________
From: freesurfer-boun...@nmr.mgh.harvard.edu
<freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of hmarz...@student.ubc.ca
<hmarz...@student.ubc.ca>
Sent: Wednesday, March 29, 2023 6:54 PM
To: freesurfer@nmr.mgh.harvard.edu <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] error with synthsr in Mac M1
External Email - Use Caution
Hi developers,
I'm Using freesurfer-darwin-macOS-dev.pkg (the ) which is developed in march
2023. Also my system is Apple M1 max (MacOS Ventura 13.2.1).
When I run synthsr, I receive an error:
mri_synthsr --i /Users/Hyperfine/028 --o /Users/Hyperfine/028/synthsr --threads
2 --lowfield
Traceback (most recent call last):
File "/Applications/freesurfer/dev/python/scripts/mri_synthsr", line 10, in
<module>
import surfa as sf
File
"/Applications/freesurfer/dev/python/lib/python3.8/site-packages/surfa/__init__.py",
line 19, in <module>
from .image import Volume
File
"/Applications/freesurfer/dev/python/lib/python3.8/site-packages/surfa/image/__init__.py",
line 1, in <module>
from .framed import FramedImage
File
"/Applications/freesurfer/dev/python/lib/python3.8/site-packages/surfa/image/framed.py",
line 24, in <module>
from surfa.image.interp import interpolate
File "surfa/image/interp.pyx", line 1, in init surfa.image.interp
ValueError: numpy.ndarray size changed, may indicate binary incompatibility.
Expected 96 from C header, got 80 from PyObject
Have you had a similar issue before? Any advice?
Many thanks in advance.
Regards
Hengameh
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