Hi Maria
Have you looked at the aseg.auto_noCCseg.mgz? Sounds like something went wrong
in your processing and you need to track backwards to see where it started
Cheers
Bruce
From: freesurfer-boun...@nmr.mgh.harvard.edu
<freesurfer-boun...@nmr.mgh.harvard.edu> On Behalf Of Maria Baena Perez
Sent: Friday, April 30, 2021 7:10 AM
To: freesurfer@nmr.mgh.harvard.edu
Subject: [Freesurfer] [ERROR] mri_fill: could not find any points where lh and
rh wm are nbrs
External Email - Use Caution
Dear Freesurfer experts,
When I run "recon-all -autorecon2-cp post_005_5" I get the following error:
-----------------------------------------------
Fill Wed Apr 28 15:02:30 CEST 2021
/usr/local/freesurfer/subjects/post_005_5/mri
mri_fill -a ../scripts/ponscc.cut.log -xform transforms/talairach.lta
-segmentation aseg.auto_noCCseg.mgz wm.mgz filled.mgz
logging cutting plane coordinates to ../scripts/ponscc.cut.log...
INFO: Using transforms/talairach.lta and its offset for Talairach volume ...
using segmentation aseg.auto_noCCseg.mgz...
reading input volume...done.
searching for cutting planes...voxel to talairach voxel transform
1.03550 -0.03726 0.02428 -5.20844;
0.04020 1.20081 0.24439 -18.80629;
-0.03042 -0.27019 1.02611 9.81696;
0.00000 0.00000 0.00000 1.00000;
reading colortable from MGH file...
colortable with 14176 entries read (originally
/usr/local/freesurfer/FreeSurferColorLUT.txt)
voxel to talairach voxel transform
1.03550 -0.03726 0.02428 -5.20844;
0.04020 1.20081 0.24439 -18.80629;
-0.03042 -0.27019 1.02611 9.81696;
0.00000 0.00000 0.00000 1.00000;
reading segmented volume aseg.auto_noCCseg.mgz...
mri_fill: could not find any points where lh and rh wm are nbrs
No such file or directory
Linux sleep2014 4.10.0-27-generic #30~16.04.2-Ubuntu SMP Thu Jun 29 16:07:46
UTC 2017 x86_64 x86_64 x86_64 GNU/Linux
recon-all -s post_005_5 exited with ERRORS at Wed Apr 28 15:02:37 CEST 2021
To report a problem, see http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
We have checked the aseg.auto_noCCseg.mgz and the wm.mgz and everything seems
to be correct.
I`m using freesurfer v6.0.
Could you help me to solve this problem?
Many thanks
Maria
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