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-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@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