Thank you for putting together the ARM Mac release! I tried to run it on my m1 macbook (running macOS Ventura 13.6.7) and I am no longer blocked by the mclmcr error, but it is still failing to run. I compiled ANTs and niftyreg from the source code on Github, and I am using the Matlab 2022a runtime. Note that I was able to generate the refaced MRI using the same input file on my PC using the docker version and an Ubuntu shell. You can see the output message below:

jamesswift@Jamess-MacBook-Pro-2 ~ % export MCRROOT=/Applications/MATLAB/MATLAB_Runtime/v912

export PATH=$PATH:/Users/jamesswift/Documents/git/ANTs:/Users/jamesswift/Documents/git/ANTs/install/bin:/Users/jamesswift/Documents/git/ANTs/install/lib:/Users/jamesswift/Documents/git/niftyreg:/Users/jamesswift/Documents/git/niftyreg/niftyreg_install/bin:/Users/jamesswift/Documents/git/niftyreg/niftyreg_install/include:/Users/jamesswift/Documents/git/niftyreg/niftyreg_install/lib:/Users/jamesswift/Documents/git/dcm2niix/build/bin

/Users/jamesswift/Documents/VERA_dependencies/mri_reface/run_mri_reface.sh /Users/jamesswift/Documents/mri_reface_test/MRI_T1.nii /Users/jamesswift/Documents/mri_reface_test/output -imType T1

-------------------------------------------------------

Running mri_reface, version 0.3.5

By: Christopher G. Schwarz schwarz.christopher@mayo.edu

Temp directory: /private/var/folders/g8/x6kv8v7x1gn4n1t041zj1xcm0000gn/T/tp250ef495_d073_433a_ba50_9eb875100d51

Target file: /Users/jamesswift/Documents/mri_reface_test/MRI_T1.nii

Output directory: /Users/jamesswift/Documents/mri_reface_test/output

Target image type: T1

Template: /Users/jamesswift/Documents/VERA_dependencies/mri_reface/mri_reface.app/Contents/Resources/mri_reface_mcr/mri_reface/images/MCALT_FaceTemplate_T1.nii

Face atlas: /Users/jamesswift/Documents/VERA_dependencies/mri_reface/mri_reface.app/Contents/Resources/mri_reface_mcr/mri_reface/images/MCALT_FaceMask.nii

Calculating affine parameters to template. This will take some time.

Using face-optimized affine.

Estimating warp to template using ANTS. This will take a while.

Error using ADIR_ReFace

ANTS 3 -m CC[

/Users/jamesswift/Documents/VERA_dependencies/mri_reface/mri_reface.app/Contents/Resources/mri_reface_mcr/mri_reface/images/MCALT_FaceTemplate_T1.nii

, MRI_T1_forCoreg.nii, 1, 5 ]  -o MRI_T1_to_MCALT_FaceTemplate_ -x

/Users/jamesswift/Documents/VERA_dependencies/mri_reface/mri_reface.app/Contents/Resources/mri_reface_mcr/mri_reface/images/MCALT_FaceTemplate_FaceWarpMask.nii

-a MRI_T1_to_MCALT_FaceTemplate_InitAffine.txt --continue-affine 0

-number-of-affine-iterations 0 -i 30x90x20 -r Gauss[3,0] -t SyN[.25]failed with

output: zsh:1: bad pattern: CC[

Do you have any suggestions for this "bad pattern" error? I haven't been able to find the file MRI_T1_to_MCALT_FaceTemplate_InitAffine.txt. I also was able to use ANTs to coregister two images with no issues outside of your project.

Thank you again for all of the support!