can you send your command line and full terminal output?
On 8/19/2019 9:24 PM, Rachel S wrote:
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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. <DGREVE@mgh.harvard.edumailto:DGREVE@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 CautionHi 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
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