[Freesurfer] Preproc-sess failed

2015-06-17 Thread Thục Trinh
Hi freesurfer experts, I am practicing on the fsfast tutorial data that were given at Freesurfer website. I run the command to do the pre-processing on the sess01 <*noproc*>. *preproc-sess -s sess01 -fsd bold -stc up -surface fsaverage lhrh -fwhm 5 -per-run* it was unfinished and failed with the E

[Freesurfer] Import mask from FSL to FS for performing seed-based FS-FAST functional connectivity

2015-06-17 Thread stdp82
Hi list, I working on the combination of MRS and FS-FAST analysis.I have extracted the grey matter within voxel (I have called it "ROI_MASK") by using FSL tools and it is in the same space of orig.mgz (the roi mask is perfectly overlapped on orig.nii.gz when I use fslview).I'd like to import it

Re: [Freesurfer] tksurfer

2015-06-17 Thread Christopher J Markiewicz
On 06/17/2015 04:19 PM, isabel martinez tejada wrote: > I cannot put a "." in the file name because Mac doesn't allow it. It > says that a file that starts with a dot is an invisible file and there > is no way I can do it, its only for special files of the system. > > Thanks, > > Isabel I'm gue

Re: [Freesurfer] tksurfer

2015-06-17 Thread Markus Gschwind
Hi Isabel, open a terminal and type: cd /Applications/freesurfer sudo mv license.txt .license That's it. Best, M 2015-06-17 22:19 GMT+02:00 isabel martinez tejada < isa_martinez...@hotmail.com>: > I cannot put a "." in the file name because Mac doesn't allow it. It says > that a file that st

Re: [Freesurfer] tksurfer

2015-06-17 Thread isabel martinez tejada
I cannot put a "." in the file name because Mac doesn't allow it. It says that a file that starts with a dot is an invisible file and there is no way I can do it, its only for special files of the system. Thanks, Isabel From: bat...@gmail.com Date: Wed, 17 Jun 2015 06:58:03 -1000 To: freesurfer

Re: [Freesurfer] tksurfer

2015-06-17 Thread Bruce Fischl
try renaming it to .license On Wed, 17 Jun 2015, isabel martinez tejada wrote: Dear experts, I am using a Mac that runs bash shell. I have performed a group analysis and would like to visualize the results. When using tksurfer I come up with a license error.  The lines of commands I am runn

Re: [Freesurfer] tksurfer

2015-06-17 Thread Rodolphe Nenert
Dear Isabel, the “.” is part of the name of the file, that is why the system cannot find it. Hope this helps, Rodolphe. `·.¸¸.·´´¯``·.¸¸.·´´¯``·.¸¸.·´´¯``·.¸¸.·´´¯``·.¸¸.·´´¯``·.¸¸.·´´¯``·.¸¸.·´´¯``·.¸¸.·´´¯``·.¸¸.·´´¯``·.¸¸.· Rodolphe Nenert, Ph.D. Department of Neurology 312 Civitan Internat

[Freesurfer] tksurfer

2015-06-17 Thread isabel martinez tejada
Dear experts, I am using a Mac that runs bash shell. I have performed a group analysis and would like to visualize the results. When using tksurfer I come up with a license error. The lines of commands I am running are: export FREESURFER_HOME=/Applications/freesurfer source $FR