Is that the right error msg? It says it can't find the RH, but you are
running it with LH. Can you post the entire terminal output?
On 11/3/2020 2:00 PM, Chan, Shi Yu wrote:
Hi FreeSurferDevelopers,
I'm trying to calculate cortical thickness statistics from the Yeo 17
Network cortical parcellation and have used mri_surf2surf to get the
.annot files for each subject.
However, when I run mris_anatomical_stats, I get an error:
ERROR: stating file
subjects_dir/sub-001/label/sub-001/label/rh.Yeo2011_17Networks_N1000.annot
It seems like the "sub-001/label" portion is repeated.
The command I use for mris_anatomical_stats is:
mris_anatomical_stats -th3 -mgz -cortex sub-001/label/lh.cortex.label
-f sub-001/stats/lh.Yeo_17Networks.stats -b -a
sub-001/label/lh.Yeo2011_17Networks_N1000.annot sub-001 lh white
The command still runs despite the error, and outputs the stats files
accordingly, so I'm not sure how important this error is, but I can't
figure out how to fix it.
This is a similar issue to:
https://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg67595.html
<https://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg67595.html> but
I've checked $SUBJECTS_DIR, and it is correct. If I run ls
$SUBJECTS_DIR/sub-001 I'll see all the different sub-folders in
sub-001 (mri stats labels etc)
Any help would be much appreciated! Thank you!
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