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PETsurfer wasn't released until the v6.0.0 stable build. You can see it in the release notes here: MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://surfer.nmr.mgh.harvard.edu/fswiki/ReleaseNotes

I'd suggest downloading the newest release which will have the most updated code.

You should be able to run PETsurfer from FS builds v6.0, v7.1, v7.2+ (gtmseg, mri_gtmpvc, etc.) on v5.3.0 reconstructions. (Note: it's often recommended for reproducibility sake to use the same version of FS if you can spare the compute time).

On Wed, Nov 3, 2021 at 8:07 AM Brusaferri, Ludovica <LBRUSAFERRI@mgh.harvard.edu> wrote:

Hi!

Thanks a lot. I have freesurfer 5.3.0 installed. If I type on the terminal commands such as tkregister it works , but if I try PETsurfer commands I have errors such as "mri_gtmpvc: Command not found”.

Any idea?

Thank you,

Ludovica

On Nov 3, 2021, at 10:05, Douglas N. Greve <dgreve@mgh.harvard.edu> wrote:

There is nothing special you have to do. What version of FS do you have? You still have to source the FS environment. If you can run recon-all, you should be able to run PETsurfer

On 11/1/2021 12:26 PM, Brusaferri, Ludovica wrote:

Hi!

I have been using freesurfer regularly and I am now trying to implement a few commands from PETsurfer MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://surfer.nmr.mgh.harvard.edu/fswiki/PetSurfer.

It seems like I cannot use any of the commands listed in the wiki (such as gtmseg or mri_coreg), although they should be part of the freesurfer package (as PETsurfer is part of freesurfer). Do I need to follow a specific pipeline to install the PETsurfer extension? If so, could you please guide me through?

Thanks so much in advance!

Kindly,

Ludovica 

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