I'll defer to Doug on this, but it looks like your label was created on fsaverage

On Fri, 18 Aug 2017, Patrícia Klobušiaková wrote:

Hi Bruce,
so I tried 
fmri/galadriel/_personal/riha_klobusiakova$ mris_anatomical_stats -l
$SUBJECTS_DIR/glm/analyza/cllabel-0001.label -t
$SUBJECTS_DIR/s0110B/surf/rh.thickness s0110B rh
but I get the same error - label point 178 has vertex number = 154391, but
surface only has 140611 vertices

My labels were created by 
mri_surfcluster --in$SUBJECTS_DIR/glm/rh.Apgem1_FSGD_HCvsPD-MCIreal.glmdir/Apgem1_FSGD_HCvsPD-M
CIreal/sig.mgh --subject fsaverage --hemi rh --thmin 4 --thmax 5 --thsign
pos --sign pos --sum $SUBJECTS_DIR/glm/analyza/HCvsPD-MCIunc_rh --o
/$SUBJECTS_DIR/glm/analyza/clvals --ocn /$SUBJECTS_DIR/glm/analyza/clnums
--olab /$SUBJECTS_DIR/glm/analyza/cllabel

Am I missing something here? Should I create labels for every subject? I
thought sig.mgh belongs to fsaverage, that's why I wanted to
use rh.thickness.fwhm10.fsaverage.mgh. I wanted to create something similar
to y.ocn.dat which I get after multiple comparisons correction (but for
clusters significant at lower threshold).

Thanks,

Patricia

2017-08-18 2:58 GMT+02:00 Bruce Fischl <fischl@nmr.mgh.harvard.edu>:
      Hi Patricia

      try using the subject's rh.thickness instead (it is in subject
      space, as I think is your label)

      cheers
      Bruce
      On Thu, 17 Aug 2017, Patrícia Klobušiaková wrote:

            Dear Freesurfer experts,
            I have labels representing clusters that I created
            using mri_surfcluster on
            sig.mgh file using a specific threshold. Now I want
            to use these labels to
            extract average thickness values for every subject.
            I tried to use 
            mris_anatomical_stats -l
            $SUBJECTS_DIR/glm/analyza/cllabel-0001.label -t
            $SUBJECTS_DIR/s0110B/surf/rh.thickness.fwhm10.fsaverage.mgh
            s0110B rh 
            to calculate it for one subject, but it doesn't work
            - I get error because
            the number of vertices in subject's file
            rh.thickness.fwhm10.fsaverage.mgh
            doesn't match surface. I should use fsaverage as a
            subject, right? So I
            tried
            mris_anatomical_stats -l
            $SUBJECTS_DIR/glm/analyza/cllabel-0001.label -t
            $SUBJECTS_DIR/s0110B/surf/rh.thickness.fwhm10.fsaverage.mgh
            fsaverage rh
            but then I get error, that it cannot
            read fsaverage/mri/wm.mgz file. The
            wm.mgz file isn't in fsaverage folder.

            How can I calculate this?

            Thanks for your help!

            Patricia


_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer


The information in this e-mail is intended only for the person to whom
it is
addressed. If you believe this e-mail was sent to you in error and the
e-mail
contains patient information, please contact the Partners Compliance
HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you
in error
but does not contain patient information, please contact the sender
and properly
dispose of the e-mail.

_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer


The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.