Re: [Freesurfer] Extract specific LGI and Volume values

2020-03-04 Thread Tien Pham
External Email - Use Caution Thank you for your suggestion. I tried to use freeview to load surface on the label I created. But terminal showed this error '' freadFloat: fread failed '' many times. I tried to load label with qdec and I got the error (pic 1) I attached below. I

Re: [Freesurfer] ubuntu: run freesurfer in two terminal

2020-03-04 Thread Bruce Fischl
sure, as long as you have more than one core. You can run them in the same terminal as long as you put & at the end of the line On Thu, 5 Mar 2020, ZhangBo wrote: External Email - Use Caution Hello FreeSurfer Developers, My computer doesn't support cuda. To speed up data

[Freesurfer] ubuntu: run freesurfer in two terminal

2020-03-04 Thread ZhangBo
External Email - Use Caution Hello FreeSurfer Developers, My computer doesn't support cuda. To speed up data processing, could I open two terminal, and in each of them, I first runing: $> export FREESURFER_HOME=/usr/local/freesurfer $> export

Re: [Freesurfer] (no subject)

2020-03-04 Thread Douglas N. Greve
It is is really bright there, try putting a few control points in WM (make sure they are in WM) On 3/3/20 12:30 PM, Laboratorio de Neurociencia Funcional wrote: > > External Email - Use Caution > > Dear Freesurfeer experts, > After running the recon-all in one of my subjets, part of the

Re: [Freesurfer] CBF data for mri_glmfit processing

2020-03-04 Thread Douglas N. Greve
Try the MultiModal integration Part 2 on this page http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial There is a lecture and a tutorial On 3/3/20 3:03 AM, Beata Brzeska wrote: > > External Email - Use Caution > > > Hello everyone, > > I am using Freesurfer 6.0 on linux cluster. > > We

Re: [Freesurfer] freesurfer- recon-all "exited with ERRORS"

2020-03-04 Thread Tim Schäfer
External Email - Use Caution Thanks for providing the image. Looks fine to me as well. What is a bit strange is that when running `mri_info` on the file you provided, it shows a FOV of 256 (not 284!) for me, so I have no idea why this error is triggered in recon-all. Maybe

Re: [Freesurfer] freesurfer- recon-all "exited with ERRORS"

2020-03-04 Thread Tim Schäfer
External Email - Use Caution Dear Frank, if you search the log in your Dropbox for 'error', this comes up: ERROR! FOV=284.000 > 256 Include the flag -cw256 with recon-all! Inspect orig.mgz to ensure the head is fully visible. Did you have a look at the orig.mgz?

[Freesurfer] freesurfer- recon-all "exited with ERRORS"

2020-03-04 Thread Frank Chau
External Email - Use Caution Hello FreeSurfer Developers, I ran a recon-all on a recent batch of T1 Nifti files and all ended with "exited with ERRORS". For example: "recon-all -s Chan_Pui_Kim_42M_T1 exited with ERRORS at Sat Jan 11 01:32:55 HKT 2020". I've searched the email