I think it is crashing outside of make_average_surface and make_average_volume,
so the log files are not telling me what is going on. Can you capture the full
terminal output? Also, you can try it with two subjects so that it runs faster
(but it might not crash).
On 7/10/2019 5:39 AM, Mads Jensen wrote:
External Email - Use Caution
Thank you very much for spending time on this!
I have attached the make_average_volume.log and make_average_surface.log files.
Den man. 8. jul. 2019 kl. 16.44 skrev Greve, Douglas N.,Ph.D.
<dgr...@mgh.harvard.edu><mailto:dgr...@mgh.harvard.edu>:
Can you send the full terminal output of make_average_subject? There should
also be some log files (make_average_volume.log and make_average_surface.log)
in the average subject that would be helpful
On 7/4/2019 4:36 AM, Mads Jensen wrote:
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HI FreeSurfer Developers,
I'm attempting to create an average subject make_average_subject but I
get the error message the following error when I run the
make_average_command:
Loading aseg from REMOVED-PATH/avg_elder/mri/aseg.presurf.hypos.mgz
ASeg Vox2RAS: -----------
-1.00000 0.00000 0.00000 128.00000;
0.00000 0.00000 1.00000 -128.00000;
0.00000 -1.00000 0.00000 128.00000;
0.00000 0.00000 0.00000 1.00000;
mghRead(mri/norm.mgz, -1): could not open file
-------------------------
Labeling Slice
relabeling unlikely voxels in interior of white matter
mri/norm.mgz: could not load norm volume from (null)
Linux 4.4.0-130-generic #156-Ubuntu SMP Thu Jun 14 08:53:28 UTC 2018
x86_64 x86_64 x86_64 GNU/Linux
I cannot find anything similar on the mailing list. I hope anyone have
any thoughts on how to trouble-shoot this one? Also, Ive attached the
recon-all.log in case it's of any use.
1) FreeSurfer version: freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
2) Platform: Ubuntu 16.04.4 LTS
3) uname -a: Linux hyades02 4.4.0-130-generic #156-Ubuntu SMP Thu Jun
14 08:53:28 UTC 2018 x86_64 x86_64 x86_64 GNU/Linux
4) recon-all.log: see attached
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