Dear Freesurfer experts,

I tried to run preproc-sess but did not have much luck to make it work.

 

I converted resting fmri file into .nii, and I created the following directory structure and it’s stored under /data/sub1/rest/001/fMRI.nii:

 

 

/data

/data/sub1

/data/sub1/rest

/data/sub1/rest/001/

/data/sub1/rest/001/fMRI.nii

 

 

Then I ran

 

preproc-sess -s sub1 -fsd rest -surface $FSAVERAGE_DIR/fsaverage lhrh -mni305 -fwhm 5 -per-run

 

And I kept getting the following error message:

 

ERROR: cound not find session sub1

 

To run freesurfer I specified SUBEJCTS_DIR as /data (I don’t think it matters, though…)

 

 

export FREESURFER_HOME=/Applications/freesurfer

source $FREESURFER_HOME/SetUpFreeSurfer.sh

SUBJECTS_DIR=/data

 

Any suggestion to make it work?

Thanks.

-Seonjoo