Hi Nikolas,

did you see the "no space left on device" error? Is your partition full? I can convert the orig.mgz with no problem. Also, why is the image 512^3? That's a giant image, and at 1mm way more than you need to fit a human head. Did you zeropad it for some reason?

cheers, Bruce

On Wed, 11 May 2011, Nikolas Borrel-Jensen wrote:

Hi all.

I have two subjects where the mri_nu_correct.mni in the autorecon1 step is aborting:

$Id: mri_nu_correct.mni,v 1.12 2009/12/16 20:15:41 greve Exp $

mri_convert orig.mgz ./tmp.mri_nu_correct.mni.16617/nu0.mnc -odt float mri_convert orig.mgz ./tmp.mri_nu_correct.mni.16617/nu0.mnc -odt float ncendef: ncid 3: No space left on device Error outputting volume: possibly disk full? Segmentation fault

... and there is plenty of space on the disk. Trying to run the command afterwards with mri_nu_correct.mni --i orig.mgz --o nu.mgz --n 2, I get a bit further

mri_convert orig.mgz ./tmp.mri_nu_correct.mni.22259/nu0.mnc -odt float mri_convert orig.mgz ./tmp.mri_nu_correct.mni.22259/nu0.mnc -odt float mri_convert: posixio.c:210: px_pgin: Assertion `*posp == ((off_t)(-1)) || *posp == lseek(nciop->fd, 0, 1)' failed. $Id: mri_convert.c,v 1.166.2.2 2010/08/10 19:11:50 greve Exp $ reading from orig.mgz... TR=0.00, TE=0.00, TI=0.00, flip angle=0.00 i_ras = (-1, 0, 0) j_ras = (0, 0, -1) k_ras = (0, 1, 0) changing data type from uchar to float (noscale = 0)... writing to ./tmp.mri_nu_correct.mni.22259/nu0.mnc... Abort ERROR: converting to minc

It works for all other subjects. Can anybody help me with that? The orig.mgz file can be found here: http://freesurfer.nikolasborrel.com/

Kind regards, Nikolas