Re: [Freesurfer] Error Help

gt; On Behalf Of Misque Boswell > Sent: Monday, July 3, 2023 12:30 PM > To: Freesurfer support list <mailto:freesurfer@nmr.mgh.harvard.edu>> > Subject: Re: [Freesurfer] Error Help > > External Email - Use Caution > > Thank you, Yujing. Here it

Re: [Freesurfer] Error Help

, 2023 12:30 PM To: Freesurfer support list Subject: Re: [Freesurfer] Error Help External Email - Use Caution Thank you, Yujing. Here it is: Misques-MBP-3 / % /Applications/freesurfer/7.4.1/bin/lta_convert -all-info 7.4.1 ProgramName: lta_convert ProgramArguments: /Applications/freesurfer

Re: [Freesurfer] Error Help

; Yujing > > From: freesurfer-boun...@nmr.mgh.harvard.edu > <mailto:freesurfer-boun...@nmr.mgh.harvard.edu> > <mailto:freesurfer-boun...@nmr.mgh.harvard.edu>> On Behalf Of Misque Boswell > Sent: Monday, July 3, 2023 11:44 AM > To: Freesurfer support list <m

Re: [Freesurfer] Error Help

On Behalf Of Misque Boswell Sent: Monday, July 3, 2023 11:44 AM To: Freesurfer support list Subject: Re: [Freesurfer] Error Help External Email - Use Caution Hello Yujing, Thank you for your response. I followed the directions for setup and sourced SetUpFreeSurfer.sh as you stated. A

Re: [Freesurfer] Error Help

External Email - Use Caution Hello Yujing, Thank you for your response. I followed the directions for setup and sourced SetUpFreeSurfer.sh as you stated. All goes as planned up to this point. Misques-MBP-3 / % export FREESURFER_HOME=Applications/freesurfer/7.4.1 Misques-MBP-3

Re: [Freesurfer] Error Help

l 2. ls -l /lta_convert Best, Yujing From: freesurfer-boun...@nmr.mgh.harvard.edu On Behalf Of Misque Boswell Sent: Sunday, July 2, 2023 8:40 AM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] Error Help External Email - Use Caution Hi, I am new to FS and recently down

[Freesurfer] Error Help

External Email - Use CautionHi, I am new to FS and recently downloaded the package per instructions on your site. I set up the path and everything seems to be fine until I attempt to use any functions.I have searched for answers on this error, but I cannot seem to find anything so I

Re: [Freesurfer] ERROR: Help with asegstats2table segmentation error

41 is the code for Right-Cerebral-White-Matter. We do not explicitly represent that in the aseg.stats. Rather, it is rhCorticalWhiteMatter that is stored in the header portion. If you run asegstats2table with any other segno (eg, 17), it will give you 17 plus a lot of global measures. One of t

[Freesurfer] ERROR: Help with asegstats2table segmentation error

Could anybody help me with the --segno option during a asegstats2table process. I've run my subjects under recon-all and I am pretty sure the data exists under the stats folder but when I ran: asegstats2table --subjects --tablefile aseg.txt --skip --segno 41 (I've tried it with different segnos

Re: [Freesurfer] error.. help?

Britni, Does the brainmask.mgz file look ok? Compare it to the brainmask.mgz file included in the sample subject 'bert' included in the freesurfer/subjects directory. Same for the aseg.mgz and brain.mgz volumes. Nick On Mon, 2007-09-10 at 12:34 -0400, Britni Crocker wrote: > after autorecon2,

[Freesurfer] error.. help?

after autorecon2, I sometimes get this error: preserving editing changes in output volume... doing initial intensity segmentation... using local statistics to label ambiguous voxels... computing class statistics for intensity windows... WM: nan +- nan [10.0 --> -10.0] GM: nan +- nan [1000