Dear Bruce,

This is the input command and the output that I get:

bash-3.2$ mris_anatomical_stats -l anon/label/lh.BA45.label -f anon lh anon lh
limiting computations to label anon/label/lh.BA45.label.
reading volume /Applications/freesurfer/experimental_data/TG/anon/lh/mri/wm.mgz...
mghRead(/Applications/freesurfer/experimental_data/TG/anon/lh/mri/wm.mgz, -1): could not open file
mris_anatomical_stats: could not read input volume /Applications/freesurfer/experimental_data/TG/anon/lh/mri/wm.mgz

or:

mris_anatomical_stats -l anon/label/lh.BA45.label anon lh
limiting computations to label anon/label/lh.BA45.label.
reading volume /Applications/freesurfer/experimental_data/TG/anon/anon/mri/wm.mgz...
mghRead(/Applications/freesurfer/experimental_data/TG/anon/anon/mri/wm.mgz, -1): could not open file
mris_anatomical_stats: could not read input volume /Applications/freesurfer/experimental_data/TG/anon/anon/mri/wm.mgz


This is the SUBJECTS_DIR

export SUBJECTS_DIR=/Applications/freesurfer/experimental_data/TG/anon

cd $SUBJECTS_DIR

Best Regards,
Mahtab.


On 19 May 2016 at 13:41, Bruce Fischl <fischl@nmr.mgh.harvard.edu> wrote:
Hi Mahtab

can you please send the screen output of the command you ran and what it printed, and also what the environment variable SUBJECTS_DIR is?

cheers
Bruce

On Thu, 19 May 2016, Mahtab Farahbakhsh wrote:

Dear FreeSurfer,
I have a problem when I use mris_anatomical_stats. It gives me an error
saying that it couldn't read the input volume which is the wm.mgz file.
would you please help me how I should fix this problem? 

Best Regards,
Mahtab.


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