Re: [Freesurfer] Freeview

2025-04-05 Thread Yoel HALIMI
External Email - Use Caution I use WSL 2/Ubuntu-22.04 and i tried Ubuntu 20.04 De : freesurfer-boun...@nmr.mgh.harvard.edu de la part de Wang, Ruopeng Envoyé : lundi 24 mars 2025 22:47 À : Freesurfer support list Objet : [*Suspicious Email*] Re

[Freesurfer] samseg: erroneous lesion labels on T2 red nucleus set to zero

2025-04-05 Thread Simone Cauzzo
External Email - Use Caution Dear support I'm running the following command in Freesurfer 7.4: samseg --t1w ${SUBJECTS_DIR}/subjOPA${ss}/mri/orig/001.mgz --flair ${SUBJECTS_DIR}/subjOPA${ss}/mri/orig/oFL.mgz --t2w ${SUBJECTS_DIR}/subjOPA${ss}/mri/orig/oT2.mgz --s subjOPA${ss} --re

Re: [Freesurfer] mris_register external atlas

2025-04-05 Thread Fischl, Bruce R.,PHD
Sorry, I defer to Doug... From: freesurfer-boun...@nmr.mgh.harvard.edu On Behalf Of Stefanie Bradley Sent: Wednesday, April 2, 2025 3:52 PM To: Freesurfer support list ; Zollei, Lilla,Ph.D. Subject: Re: [Freesurfer] mris_register external atlas External Email - Use Caution Hi Bruce,

[Freesurfer] synthstrip use as a Docker for all MRI files in directory

2025-04-05 Thread Sanchez Fernandez, Ivan
External Email - Use Caution First of all, thank you for developing freesurfer and synthstrip. They are wonderful tools. I am doing research with brain MRIs and part of the preprocessing needs skull stripping. Synthstrip is great. What I am trying to do is to create a Docker im

Re: [Freesurfer] Importing surface meshes from 3rd party cortical surface reconstruction tools for analysis in fsaverage template space

2025-04-05 Thread James Hengenius
External Email - Use Caution Hi Lilla, No worries - any help would be appreciated! We're collecting low-field (64mT) infant volumes and also processing some NIHPD2 (1.5T) infant volumes. We've found that iBEAT currently works a bit better than Infant Freesurfer at the younger ag

Re: [Freesurfer] freesurfer 8

2025-04-05 Thread fsbuild
External Email - Use Caution  The freesurfer_ubuntu22-8.0.0_amd64.deb installer may work if you are running an early version of Debian 12.  The system may refuse to do the install on the current version of Debian 12 because of system library conflicts.  I don’t see a container i

[Freesurfer] samseg: erroneous lesion labels on T2 red nucleus set to zero

2025-04-05 Thread Simone Cauzzo
External Email - Use Caution Dear support I'm running the following command in Freesurfer 7.4: samseg --t1w ${SUBJECTS_DIR}/subjOPA${ss}/mri/orig/001.mgz --flair ${SUBJECTS_DIR}/subjOPA${ss}/mri/orig/oFL.mgz --t2w ${SUBJECTS_DIR}/subjOPA${ss}/mri/orig/oT2.mgz --s subjOPA${ss} --re