External Email - Use Caution

Here is the log file, thanks for the help!

Mark

____________________ Mark Wagshul, PhD Associate Professor Gruss Magnetic Resonance Research Center Albert Einstein College of Medicine Bronx, NY 10461

Ph: 718-430-4011 FAX: 718-430-3399 Email: mark.wagshul@einsteinmed.edu

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-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu On Behalf Of freesurfer-request@nmr.mgh.harvard.edu Sent: Wednesday, November 22, 2023 1:22 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Freesurfer Digest, Vol 237, Issue 26

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Today's Topics:

1. Help (Xincen Wu) 2. Re: freesurfer results QC (yunus soleymani) 3. Unable to add FGATIR during thalamic segmentation (Pal, Amrita) 4. issue with mri_vol2surf (Atena Akbari) 5. Re: Unable to add FGATIR during thalamic segmentation (Iglesias Gonzalez, Juan E.) 6. Re: run recon-all with already skull-stripped data (Douglas N. Greve) 7. Re: total intracranial volume (Douglas N. Greve) 8. Re: Fwd: About Mean LGI value (Douglas N. Greve) 9. Re: Transformation of volume images (Douglas N. Greve) 10. Re: Distance Measurement After recon-all (Douglas N. Greve) 11. Re: recon-all error - MRISlabel2Mask() (Douglas N. Greve) 12. Re: Boundary based registration on partial FoV to MNI space (Douglas N. Greve) 13. Re: Errors in recon-all command (Douglas N. Greve)

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Message: 1 Date: Wed, 22 Nov 2023 08:44:18 -0500 From: Xincen Wu xlwu25@groton.org Subject: [Freesurfer] Help To: Freesurfer@nmr.mgh.harvard.edu Message-ID: CADAiWu4jbXuW22WA9OWD5E0sdrXA9ZJw5Eo-K+z3y7s0CsPRNA@mail.gmail.com Content-Type: text/plain; charset="utf-8"

External Email - Use Caution

Hi,

I am using freesurfer. I have gone through with the installation and diagnostics and everything works fine. FOr example, using the command recon-all --help in terminal yields a bunch of directions. Yet, when I enter something like: recon-all -s bert -autorecon1

an error pops up saying my python3 is problematic. However, I regularly use python3 and redownloaded it after. Please advise on the issue at hand.

Thanks, Lucas