Re: [Freesurfer] bert log file

2018-01-21 Thread Bruce Fischl
Hi Renew all the log file says is that that process was killed. Maybe you ran out of memory? Although the binary that was running at the time isn't terribly memory intensive. Can you verify that nothing is running on your machine and try again? And also let us know how much RAM you have? cheers

[Freesurfer] bert log file

2018-01-21 Thread Renew Andrade
Hello everyone!I write to you because I can't get the process done in freesurfer. I attach the log file. Thank you! Mon Jan 22 01:16:35 CET 2018 /home/andraderenew/Downloads/SUBJECTS_DIR/bert /home/andraderenew/Downloads/freesurfer/bin/recon-all -i /home/andraderenew/Downloads/SUBJECTS_DIR/sample-

Re: [Freesurfer] external WM and GM masks as input to recon-all?

2018-01-21 Thread MIKHAEL Shadia
Dear Bruce, Thank you for your reply at https://mail.nmr.mgh.harvard.edu/pipermail/freesurfer/2018-January/055512.html regarding the use of grey and white matter masks. Since you were suggesting that this may be difficult, I have instead tried to introduce external masks at a later stage (ri

Re: [Freesurfer] convert nii to nii.gz

2018-01-21 Thread Bruce Fischl
Hi Ting if you can't see the share folder then you can't access our binaries. Maybe talk to your local sysadmins? cheers Bruce On Sat, 20 Jan 2018, Ting Li wrote: Hi Bruce, Thanks for your quickly response. Sorry for my late. I try to run FreeSurfer in a server. It was installed in my home