Re: [Freesurfer] Running MATLAB on a MAC PRO

External Email - Use Caution  You can try using the fs_install_mcr script to install the matlab runtime environment instead of using a generic or full install of Matlab on the machine.  Below the PATH to FREESRUFER_HOME is listed as /Applications/freesurfer/7.4.1, but you should

Re: [Freesurfer] Recon-all-clinical error: Illegal instruction Error in SynthSeg

External Email - Use Caution  Besides patching the python distribution, another option available now is the development arm64 build for silicon Macs with an M1, M2 processor.  But this is not a release build and so has not been tested like a stable release.  The dev builds are c

[Freesurfer] Running MATLAB on a MAC PRO

External Email - Use Caution Hi All : I just bought a 2023 MAC PRO with an M2 Ultra Chip for my lab. It's running macOS Ventura. I have installed MATLAB on it but it refuses to run in a terminal or from the Applications folder. MATLAB runs perfectly fine on my other Linux machine

Re: [Freesurfer] Recon-all-clinical error: Illegal instruction Error in SynthSeg

External Email - Use Caution Hi Julian, I have managed to run recon-all on my Apple M1 macOS Ventura using the 7.3.2 version of Freesurfer. It does not work on 7.4.2 or dev versions, however. These instructions were posted in a previous correspondence from fsbuild, but repostin

Re: [Freesurfer] Recon-all-clinical error: Illegal instruction Error in SynthSeg

External Email - Use Caution Dear Julian, I believe this is a problem with SynthSeg not being compatible with the new microprocessor in MAC computers. Our software engineers are looking into solutions to this. Sorry for the inconvenience, Eugenio -- Juan Eugenio Iglesias http://

[Freesurfer] Recon-all-clinical error: Illegal instruction Error in SynthSeg

External Email - Use Caution Hello FreeSurfer Developers, I'm attempting to do a surface reconstruction from a GRE magnitude image using recon-all-clinical.sh When I am running the pipeline, I get the following error: Illegal instruction Error in SynthSeg neuroadmin@medma0236

[Freesurfer] PETSurfer

External Email - Use Caution Hi I am reaching out to ask some questions about PetSurfer. I am working with an open access dataset (ADNIDOD

Re: [Freesurfer] Potential bias in the base template

External Email - Use Caution Hi Maksim, 1. Yes the median image will be very similar to the first three time points. In fact, if the 4th image was an MRI of a knee it would not matter at all. 2. There is a potential bias this way, however, I expect it to be very small. I don’t k

Re: [Freesurfer] mri_gtmpvc: ROI analisis no psf no rescale, negative or hight uptake.

External Email - Use Caution I'm not sure what problem you are describing. Can you elaborate? On 9/25/2023 9:16 AM, Matteo Parodi wrote: External Email - Use Caution Hello, I'm trying to perform a pet ROI analysis on an image recon from a T1. I have to perform the anal

[Freesurfer] Potential bias in the base template

External Email - Use Caution Hi FreeSurfer Community, I plan to use longitudinal FreeSurfer to process a set of longitudinal scans that are likely to create a bias in the base template. Specifically, our study consists of 3 scans acquired within the first 20 weeks and a subseque