Re: [Freesurfer] [Re] medial wall label in Freesurfer 6

Yes, it solves medial_wall label problem but not mri_aparc2aseg error.log. I attached you in a previous message: https://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg56610.html Many thanks, M del Mar ___ Freesurfer mailing list Freesurfer

Re: [Freesurfer] [Re] medial wall label in Freesurfer 6

Hi M del Mar, I think I’ve discovered the source of this issue. It’s tough to troubleshoot it without access to the subject set, but I think I have a working fix. The patch link (https://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/6.0.0-patch/make_average_surface) is updated with the new sc

Re: [Freesurfer] [Re] medial wall label in Freesurfer 6

Hi Andrew, My test in December with last version of make_average_surface worked correctly. However, now I am trying to make another average subject and medial_wall.label is not created. I am using the last patch as last time. It is unusual because last time label folder was correctly created. I

Re: [Freesurfer] [Re] medial wall label in Freesurfer 6

Hi M del Mar, Okay, I just updated the script at https://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/6.0.0-patch/make_average_surface. Let me know if the issue continues. best, Andrew On Dec 22, 2017, at 9:25 AM, M del Mar Velasco mailto:melly_2...@hotmail.com>> wrote: Hi, I am sorry for i

Re: [Freesurfer] [Re] medial wall label in Freesurfer 6

Hi M del Mar, Sorry for the delay, I’ve uploaded the fix to https://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/6.0.0-patch/make_average_surface. If you copy this new version of make_average_surface to $FREESURFER_HOME/bin, this should hopefully solve the problem. Let me know if these issue

Re: [Freesurfer] [Re] medial wall label in Freesurfer 6

Hi M del Mar, I think I’ve found the cause - it’s due to a small bug in make_average_surface. I should have a fix for you soon (today or tomorrow). best, Andrew > On Dec 7, 2017, at 3:47 PM, M del Mar Velasco wrote: > > Hi, > > Have you take a look at our data? Have you find any possible caus

Re: [Freesurfer] [Re] medial wall label in Freesurfer 6

Thanks, I just received it - I’ll take a look Andrew On Dec 1, 2017, at 5:10 AM, M del Mar Velasco mailto:melly_2...@hotmail.com>> wrote: Hello, I have upload the data. Recipient mail was ahoo...@mgh.harvard.edu. Please, check you have received it. Thanks very

Re: [Freesurfer] [Re] medial wall label in Freesurfer 6

Okay, can you upload the compressed average subject to our ftp server (https://surfer.nmr.mgh.harvard.edu/fswiki/FtpFileExchange) and I will take a look? thanks, Andrew On Nov 30, 2017, at 12:30 PM, M del Mar Velasco mailto:melly_2...@hotmail.com>> wrote: Hi, I have installed the patch and i

Re: [Freesurfer] [Re] medial wall label in Freesurfer 6

The make_average_subject patch can be downloaded here: https://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/6.0.0-patch/ The readme file contains some instructions. This patch will definitely fix your recon-all error, but I don’t think it’s related to the labeling issue. Though, it’s worth a t

Re: [Freesurfer] [Re] medial wall label in Freesurfer 6

I’ve tested a few different (large) sets of subject data and still been unable to replicate this problem, so tough to say what’s causing it. Are you using the make_average_subject 6.0.0-patch? Have you also tried running the command with a subgroup containing the other 56 subjects (maybe it’s a