Thanks! But it looks this script keeps looking for the lh.gwdist00N forever, here is the error message:
mri_compute_layer_fractions: could not load lh surface 5 from /Users/emilyUS/Documents/Cortical_layer/Data/anatomical/Rest-Anatomical/output/surf/lh.gwdist005 I do not have lh.gwdist005. How can I set up the number in this code? > On Sep 1, 2015, at 11:08, Bruce Fischl <[email protected]> wrote: > > no, you just need to name them in the way that > mri_compute_layer_fractions is expecting (e.g. lh.gwdist000 for white, > etc...) > On Tue, 1 Sep 2015, Yun Wang wrote: > >> I do have 5 intermediate surfaces, should I combine them together? >> >>> On Sep 1, 2015, at 10:43, Bruce Fischl <[email protected]> wrote: >>> >>> you need to use mris_expand to generate the family of intermediate surfaces >>> >>> >>> cheers >>> Bruce >>> On Tue, 1 Sep 2015, Yun Wang wrote: >>> >>>> Hi all experts, >>>> I have the error message when trying to use mri_compute_layer_fractions. >>>> mri_compute_layer_fractions $SUBJECTS_DIR/fMRI/register.lta >>>> $SUBJECTS_DIR/white_lh.mgz test >>>> reading registration >>>> file/Users/emilyUS/Documents/Cortical_layer/Data/anatomical/Rest-Anatomical/fMR >>>> I/register.lta >>>> regio_read_register: loading lta >>>> regio_read_register: loading lta >>>> reading >>>> volume/Users/emilyUS/Documents/Cortical_layer/Data/anatomical/Rest-Anatomical/out >>>> put/mri/aseg.mgz >>>> reading laminar surfaces from gwdist.? >>>> reading >>>> surface/Users/emilyUS/Documents/Cortical_layer/Data/anatomical/Rest-Anatomical/out >>>> put/surf/lh.gwdist000 >>>> Anyone know the gwdist? how I can get it? >>>> Thanks! >>>> Yun Wang >>> _______________________________________________ >>> Freesurfer mailing list >>> [email protected] >>> 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 >> [email protected] >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> >> > _______________________________________________ > Freesurfer mailing list > [email protected] > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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