Hi Mahtab
the mris_anatomical_stats help says:
mris_anatomical_stats [options] <subjectname> <hemi> [<surfacename>]
.
.
.
-f <tablefile>
table output to tablefile (different format than -b).
Must use-a or -l options to spec input.
.
.
.
so you are specifycing the name of the table as "anon", the name of the
subject as "lh", the name of the hemi as "anon" and the surface name as
"lh".
On Thu,
19 May 2016, Mahtab Farahbakhsh
wrote:
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 <fis...@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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