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Dear Freesurfer developers,

After we run recon-all in a subject we noticed some mistakes, so we added manually some control points in a point set we named control.dat. Then we tried to run autorecon, with the command: 

recon-all -autorecon2-cp -autorecon3 -subjid Sub42

but we stumbled upon the following error message:

using control points from file /project/data/scans/subject/Sub42/tmp/control.dat...

assuming input volume is MGH (Van der Kouwe) MP-RAGE

using segmentation for initial intensity normalization

using MR volume brainmask.mgz to mask input volume...

reading from norm.mgz...

Reading aseg aseg.presurf.mgz

normalizing image...

Reading 133 control points...

only using 133 control points from file, mean 69.1, scaling by 1.59...

building Voronoi diagram...

performing soap bubble smoothing, sigma = 8...

processing with aseg

removing outliers in the aseg WM...

580 control points removed

Building bias image

building Voronoi diagram...

performing soap bubble smoothing, sigma = 0...

Smoothing with sigma 8

Applying bias correction

HISTOalloc(-2147483648): could not allocate histogram

building Voronoi diagram...

performing soap bubble smoothing, sigma = 8...

 

Iterating 2 times

---------------------------------

3d normalization pass 1 of 2

white matter peak found at 110

Cannot allocate memory

Linux hpc137 2.6.32-696.16.1.el6.x86_64 #1 SMP Wed Nov 15 16:51:15 UTC 2017 x86_64 x86_64 x86_64 GNU/Linux

 

recon-all -s Sub42 exited with ERRORS

What do you think is the problem?

Thank you in advance!

Best regards,

Eleni

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