Hi Daniel

looks like something is wrong with the rh.orig surface. Can you run mris_info on it? Load it in freeview? Maybe you ran out of disk space? If it is corrupted you should be able to delete it and rerun recon-all with -make all

cheers Bruce

On Fri, 22 Mar 2019, Daniel Callow wrote:

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Hello, During recon-all I keep running into the same error for one of my subjects.

#@# Make White Surf rh Fri Mar 22 00:57:11 EDT 2019

/Volumes/DANIEL/freesurfer/Rest.AES118/scripts

\n mris_make_surfaces -aseg ../mri/aseg.presurf -white white.preaparc -noaparc -whiteonly -mgz -T1 brain.finalsurfs Rest.AES118 rh \n

using white.preaparc as white matter name...

only generating white matter surface

using aseg volume ../mri/aseg.presurf to prevent surfaces crossing the midline

not using aparc to prevent surfaces crossing the midline

INFO: assuming MGZ format for volumes.

using brain.finalsurfs as T1 volume...

$Id: mris_make_surfaces.c,v 1.164.2.4 2016/12/13 22:26:32 zkaufman Exp $

$Id: mrisurf.c,v 1.781.2.6 2016/12/27 16:47:14 zkaufman Exp $

reading volume /Volumes/DANIEL/freesurfer/Rest.AES118/mri/filled.mgz...

reading volume /Volumes/DANIEL/freesurfer/Rest.AES118/mri/brain.finalsurfs.mgz...

reading volume /Volumes/DANIEL/freesurfer/Rest.AES118/mri/../mri/aseg.presurf.mgz...

reading volume /Volumes/DANIEL/freesurfer/Rest.AES118/mri/wm.mgz...

25155 bright wm thresholded.

1843 bright non-wm voxels segmented.

reading original surface position from /Volumes/DANIEL/freesurfer/Rest.AES118/surf/rh.orig...

mris_make_surfaces: could not read surface file /Volumes/DANIEL/freesurfer/Rest.AES118/surf/rh.orig

ERROR: reading /Volumes/DANIEL/freesurfer/Rest.AES118/surf/rh.orig

Read 0 bytes, expected 1

Argument list too long

Darwin hlhp-105.umd.edu 16.7.0 Darwin Kernel Version 16.7.0: Wed Oct 10 20:06:00 PDT 2018; root:xnu-3789.73.24~1/RELEASE_X86_64 x86_64

recon-all -s Rest.AES118 exited with ERRORS at Fri Mar 22 00:57:16 EDT 2019

For more details, see the log file /Volumes/DANIEL/freesurfer/Rest.AES118/scripts/recon-all.log

To report a problem, see http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting

Thanks for any help you can provide with debugging!

Daniel Callow PhD Student, Neuroscience and Cognitive Science Exercise for Brain Health Lab University of Maryland, College Park ddcc2442@gmail.com 443-254-6298