Re: [Freesurfer] Freesurfer with Catalina

External Email - Use Caution Hello Stephan, I’m assuming you’re running the freesurfer 6.0.0 release and used the Mac pkg file to install it on your Mac from,freesurfer-Darwin-OSX-stable-pub-v6.0.0.dmg You would need admin/root privileges to use the “Security and Privacy” tab

[Freesurfer] mri_robust_template: Internal Error: Rotation should not scale.

ion: freesurfer-linux-centos7_x86_64-dev-20200403-65d465d Linux tonetti.nmr.mgh.harvard.edu 3.10.0-1062.4.3.el7.x86_64 #1 SMP Wed Nov 13 23:58:53 UTC 2019 x86_64 x86_64 x86_64 GNU/Linux Thanks, Sophie recon-all.log Description: recon-all.log ___ Freesur

[Freesurfer] White matter hypointensities

External Email - Use Caution Hello, When was the wm-hypointeisities label added to the Freesurfer segmentation? Is there any paper that explicitly mentions this, or should I just cite the 2002 paper? Thanks, -Eli Houston Methodist. Leading Medicine. Houston Methodist is

[Freesurfer] Freesurfer with Catalina

External Email - Use Caution Hi Freesurer team, I am trying to run mri_convert (and recon_all) with a Macbook Pro 2019 with Catalina. Running mri_convert always leads to the following error: //Users/neurolab/Desktop/Stephan/Programmes/freesurfer/bin/mri_convert: line 3:

Re: [Freesurfer] Hippocampal Subfield Segmentation Error

Hi Alex, Do you happen to have jenv installed on your system? Another user on the help list had this same issue a couple years ago, and it seemed like uninstalling jenv was their solution. best Andrew From: "Iglesias Gonzalez, Juan E." Date: Tuesday, March 31, 2020 at 6:16 PM To: FS Help

Re: [Freesurfer] Petsurfer: Gtmstats < 1, voxel wise mean is fine

Hi Doug, Here was my original question (we haven't communicated outside of this thread): I've recently run into a case the gtmstats uptake (reference region: cerebellum) for the pericarlcarine ROI's are as low as 0.40, however computing the voxel wise mean using input.rescaled.nii.gz and