sorry, it is --slabel
btw, there is documentation. If you run it without options it gives you a list of arguments as well as examples
doug

On 03/05/2014 11:32 AM, krista kelly wrote:

Thanks Doug, but when I try this I get the following error: Option --label unknown

On Wed, Mar 5, 2014 at 11:21 AM, Douglas N Greve <greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>> wrote:


    try
    mri_segstats --label-thresh .5 --label BV20 lh V1.thresh.label --i
    $SUBJECTS_DIR/BV20/surf/lh.pial_lgi --sum lh.V1.thresh.label.stats

    On 03/05/2014 11:15 AM, krista kelly wrote:
    > Hello,
    >
    > I would like to extract the pial_lgi data from Freesurfer's
    V1.thresh
    > labels but can't quite figure it out. I've tried adapting the
    commands
    > from the LGI Freesurfer tutorial as such:
    >
    > mri_segstats --label-thresh BV20 lh V1.thresh.label --i
    > $SUBJECTS_DIR/BV20/surf/lh.pial_lgi --sum lh.V1.thresh.label.stats
    >
    > I've also tried
    >
    > mris_anatomical_stats -l lh.V1.thresh.label -f
    > BV20/stats/lh.V1.thresh.label.stats BV20 lh pial_lgi
    >
    > but I've had no luck with either.
    >
    > I would appreciate any help!
    >
    > Thanks,
    > Krista
    >
    >
    > _______________________________________________
    > Freesurfer mailing list
    > Freesurfer@nmr.mgh.harvard.edu

    <mailto:Freesurfer@nmr.mgh.harvard.edu>

    > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

    --
    Douglas N. Greve, Ph.D.
    MGH-NMR Center

    greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>
    Phone Number: 617-724-2358 <tel:617-724-2358>
    Fax: 617-726-7422 <tel:617-726-7422>

    Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
    <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting>
    FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2
    www.nmr.mgh.harvard.edu/facility/filedrop/index.html
    <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html>

    Outgoing:
    ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/

    _______________________________________________
    Freesurfer mailing list

    Freesurfer@nmr.mgh.harvard.edu <mailto: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.

--
Douglas N. Greve, Ph.D.
MGH-NMR Center
greve@nmr.mgh.harvard.edu
Phone Number: 617-724-2358
Fax: 617-726-7422

Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2
www.nmr.mgh.harvard.edu/facility/filedrop/index.html
Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/