[Mne_analysis] Error mne_surf2bem
Laetitia Grabot
laetitia.grabot at gmail.com
Wed Jan 13 10:04:01 EST 2016
Dear MNE-users,
I have a problem for two of my subjects when creating the high resolution
head surface with mne_surf2bem (after creating the BEM surfaces). The error
I get is the following one. When I look to the outer_skin.fif, everything
looks ok. What is the problem and what could be a solution?
Thanks!
Laetitia G.
Command:
mne_surf2bem --surf ${SUBJECTS_DIR}/${SUBJECT}/surf/lh.seghead --id 4
--check --force --fif ${SUBJECTS_DIR}/${SUBJECT}/bem/${SUBJECT}-head.fif
Output:
mne_surf2bem version 1.8 compiled at Jan 11 2016 04:32:34
input file # 1 :
/neurospin/meg/meg_tmp/Rabbit_LaetitiaG_2015/freesurfer_segmentation//cc150418/surf/lh.seghead
/ id = 4 / sigma N/A
output file :
/neurospin/meg/meg_tmp/Rabbit_LaetitiaG_2015/freesurfer_segmentation//cc150418/bem/cc150418-head.fif
New quad file : nvert = 202887 nquad = 203438
Triangle and vertex normals and neighboring triangles...[done]
Vertex neighbors... Warning: Too many neighbors for vertex 107343
Warning: Too many neighbors for vertex 107345
Warning: Too many neighbors for vertex 107347
Warning: Too many neighbors for vertex 108287
Warning: Too many neighbors for vertex 108289
Warning: Too many neighbors for vertex 109198
Warning: Too many neighbors for vertex 109200
Warning: Too many neighbors for vertex 124522
Warning: Too many neighbors for vertex 125455
Warning: Too many neighbors for vertex 125456
Warning: Too many neighbors for vertex 131243
Warning: Too many neighbors for vertex 131245
Warning: Too many neighbors for vertex 132243
Warning: Too many neighbors for vertex 132245
[done]
Distances between neighboring vertices...[1219568 distances done]
Warning: 8 topological defects were fixed.
Warning: 985 vertices had incorrect number of distinct neighbors
(fixed).
valid = 1 # volume info valid
filename =
/neurospin/meg/meg_tmp/Rabbit_LaetitiaG_2015/freesurfer_segmentation//cc150418/mri/seghead.mgz
volume = 256 256 256
voxelsize = 1.0000 1.0000 1.0000
xras = -1.0000 0.0000 0.0000
yras = 0.0000 0.0000 -1.0000
zras = 0.0000 1.0000 0.0000
cras = -0.5000 22.2651 -13.4940
/neurospin/meg/meg_tmp/Rabbit_LaetitiaG_2015/freesurfer_segmentation//cc150418/surf/lh.seghead
read. id = 4
outer skin CM is -3.64 -8.94 -9.34 mm
Surface outer skin is not complete (sum of solid angles = 0.999986 * 4*PI
instead).
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