Hi Anita, I don't believe you have the complete path set to your SUBJECTS_DIR environmental variable, unless Desktop is in your root dir which I doubt is the case.

Easy way to set the variable:

cd /path/to/tutorial/data/ setenv SUBJECTS_DIR $PWD

Also, check you have fsaverage symlinked to the SUBJECTS_DIR

cd $SUBJECTS_DIR ln -s /usr/local/freesurfer/subjects/fsaverage .

That should do the trick. -Louis

On Tue, 5 Nov 2013, Anita van Loenhoud wrote:

Hi everyone, I run into an error when I try to do the tutorial on ROI group analysis. I downloaded the tutorial set, but did not put it into FREESURFER_HOME/subjects, because my computer doesn't allow it. I made my own folder and copied everything in there. The error arises when I try to map a label from the fsaverage subject to a target subject:

mri_label2label \

...

--srcsubject fsaverage \   --srclabel fsaverage/label/lh.BA45.label \   --trgsubject 004 \   --trglabel 004/label/lh.BA45.label \   --hemi lh \   --regmethod surface

srclabel = fsaverage/label/lh.BA45.label srcsubject = fsaverage trgsubject = 004 trglabel = 004/label/lh.BA45.label regmethod = surface

srchemi = lh trghemi = lh trgsurface = white srcsurfreg = sphere.reg trgsurfreg = sphere.reg usehash = 1 Use ProjAbs  = 0, 0 Use ProjFrac = 0, 0 DoPaint 0

SUBJECTS_DIR   Desktop/anita-vumc/anitapddatabase-freesurfer/buckner_data/tutorial_subjs/ group_analysis_tutorial FREESURFER_HOME /usr/local/freesurfer Loading source label. Found 3422 points in source label. Starting surface-based mapping Reading source registration   Desktop/anita-vumc/anitapddatabase-freesurfer/buckner_data/tutorial_subjs/ group_analysis_tutorial/fsaverage/surf/lh.sphere.reg MRISread(Desktop/anita-vumc/anitapddatabase-freesurfer/buckner_data/tutoria l_subjs/group_analysis_tutorial/fsaverage/surf/lh.sphere.reg): could not open file No such file or directory ERROR: could not readDesktop/anita-vumc/anitapddatabase-freesurfer/buckner_data/tutorial_subjs/g roup_analysis_tutorial/fsaverage/surf/lh.sphere.reg

In related posts I read that it might have to do with the creation of symbolic links. I made sure that in my SUBJECTS_DIR, fsaverage is a symbolic link to my FREESURFER_HOME/subjects directory, in which surf/lh.sphere.reg etc are stored. What am I doing wrong? Does it still have to do with the fact that I put the tutorial data in another folder?

Hope you can help me,

Thanks in advance,

Anita