External Email - Use Caution Hi Greve,
Thank you for your prompt reply. I tried removing --l before. But it gave Mapping unhit to unknown Found 123407 unhit vertices None of the vertices were labeled. What could be the problem? Thank you. Best regards, Rachel Greve, Douglas N.,Ph.D. <dgr...@mgh.harvard.edu> 于2019年8月19日周一 下午6:07写道： > You should remove the --l argument. That is incompatible with --ldir. > > On 8/19/19 5:50 PM, Rachel S wrote: > > > > External Email - Use Caution > > > > Hi Freesurfer community, > > > > I was trying to use mris_label2annot to generate annotation file, my > > commands are: > > > > mris_label2annot --s p6 --h rh --a t500 --ldir > > $SUBJECTS_DIR/p6/label/regenerated_rh_500 --nhits nhits.mgh --ctab > > /home/rachelsun/Software/freesurfer/resolution1015_LUT.txt --l > > $SUBJECTS_DIR/p6/label/regenerated_rh_500/rh.pericalcarine_7.label > > --surf pial > > > > The output of the command is: > > Reading ctab /home/rachelsun/Software/freesurfer/resolution1015_LUT.txt > > Number of ctab entries 1016 > > > > $Id: mris_label2annot.c,v 1.20 2016/01/07 23:28:11 greve Exp $ > > cwd /home/rachelsun/Software/freesurfer/subjects/fsaverage5/mri > > cmdline mris_label2annot --s p6 --h rh --a t500 --ldir > > /home/rachelsun/Software/freesurfer/subjects/p6/label/regenerated_rh_500 > > --nhits nhits.mgh --ctab > > /home/rachelsun/Software/freesurfer/resolution1015_LUT.txt --l > > > /home/rachelsun/Software/freesurfer/subjects/p6/label/regenerated_rh_500/rh.pericalcarine_7.label > > > --surf pial > > sysname Linux > > hostname rachel-pc > > machine x86_64 > > user rachelsun > > > > subject p6 > > hemi rh > > SUBJECTS_DIR /home/rachelsun/Software/freesurfer/subjects > > ColorTable /home/rachelsun/Software/freesurfer/resolution1015_LUT.txt > > AnnotName t500 > > NHitsFile nhits.mgh > > nlables 1 > > LabelThresh 0 0.000000 > > Loading /home/rachelsun/Software/freesurfer/subjects/p6/surf/rh.pial > > 1 107939 rh.lateralorbitofrontal_9 > > Mapping unhit to unknown > > Found 123130 unhit vertices > > Writing annot to > > /home/rachelsun/Software/freesurfer/subjects/p6/label/rh.t500.annot > > > > I am sure I have rh.pericalcarine_7 in the folder, but the code always > > generates rh.lateralorbitofrontal_9 region. And I also attached my > > colortable file for your reference. > > > > Thank you for your help. > > > > Best regards, > > Rachel > > > > > > > > _______________________________________________ > > Freesurfer mailing list > > Freesurfer@nmr.mgh.harvard.edu > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
