Hello Freesurfer list,

I have several different surface labels that I am converting into volume regions-of-interest in white matter. For 2 out of 11 participants, one of the labels will not convert. My command has worked for these two participants with all other labels that I've tried. I have no trouble viewing the label in question on the inflated surface with freeview, and no problem viewing the brain.mgz files.

Ideas?

Thank you,

Martha

Command:

mri_label2vol --label d16/roi_lh_man3/lh.behav-full-sig2-transformed.label --temp ~/project_deaf_anatomy/analysis_nifti_freesurfer/d16/mri/brain.mgz --reg d16/reg/surf2conf.dat --subject d16 --hemi lh --proj abs -1 -1 0.1 --o d16/roi_lh_man3/roi_lh_man3_conf.nii.gz; done

Output:

Number of labels: 1

d16/roi_lh_man3/lh.behav-full-sig2-transformed.label

Annot File: (null)

Template Volume: /home/martha/project_deaf_anatomy/analysis_nifti_freesurfer/d16/mri/brain.mgz

Outut Volume: d16/roi_lh_man3/roi_lh_man3_conf.nii.gz

Registration File: d16/reg/surf2conf.dat

Fill Threshold: 0

Label Vox Vol: 1

ProjType: abs

ProjTypeId: 1

ProjStart: -1

ProjStop: -1

ProjDelta: 0.1

Subject: d16

Hemi: lh

UseNewASeg2Vol: 1

DoLabelStatVol 0

LabelCodeOffset 0

setenv SUBJECTS_DIR /home/martha/project_deaf_anatomy/analysis_nifti_freesurfer

$Id: mri_label2vol.c,v 1.34.2.5 2012/06/08 17:31:03 greve Exp $

Template RAS-to-Vox: --------

-1.000 0.000 0.000 128.000;

-0.000 -0.000 -1.000 128.000;

-0.000 1.000 -0.000 128.000;

0.000 0.000 0.000 1.000;

Template Voxel Volume: 1

nHits Thresh: 0

Loading registration from d16/reg/surf2conf.dat

RegMat: --------

1.000 0.000 0.000 0.000;

0.000 1.000 0.000 0.000;

0.000 0.000 1.000 0.000;

0.000 0.000 0.000 1.000;

Label RAS-to-Vox: --------

-1.000 0.000 0.000 128.000;

0.000 0.000 -1.000 128.000;

0.000 1.000 0.000 128.000;

0.000 0.000 0.000 1.000;

INFO: loading surface /home/martha/project_deaf_anatomy/analysis_nifti_freesurfer/d16/surf/lh.white

nvertices = 114782

Reading thickness /home/martha/project_deaf_anatomy/analysis_nifti_freesurfer/d16/surf/lh.thickness

nlabels = 1

Allocating Hit Volume (16777216) voxels

Loading d16/roi_lh_man3/lh.behav-full-sig2-transformed.label

Segmentation fault

Martha M. Shiell, PhD