Hi Tudor, I don't know how to solve this problem. Maybe Nick knows.
doug
On 12/19/12 6:59 AM, Tudor Popescu wrote:
Hi Doug, thanks for replying, here is the file attached. In case the
attachment doesn't go through please let me know if I should send it
to a different address.
Tudor
On 18 December 2012 17:34, Douglas N Greve <gr...@nmr.mgh.harvard.edu
<mailto:gr...@nmr.mgh.harvard.edu>> wrote:
Can you send the recon-all.log file (located in the
subject/scripts folder).
doug
On 12/18/2012 11:41 AM, Tudor Popescu wrote:
> Hello,
>
> First of all, apologies for asking for help three times today!
THings
> will hopefully become clearer once I get used to FS a bit; I
really do
> appreciate the amazing support provided by the team behind
FreeSurfer!
>
> I ran the following command on one of my structurals:
>
> /recon-all -subject M01 -i M01.nii.gz -all/
>
> After a few minutes, recon-all ended with the following message:
>
> /Assertion failed at line 827 in file templates/CachedArray.cc/
> /nu_estimate_np_and_em: crashed while running volume_stats
> (termination status=256)/
> /nu_correct: crashed while running nu_estimate_np_and_em
(termination
> status=256)/
> /ERROR: nu_correct/
> /Linux FreeSurfer 2.6.28-11-generic #42-Ubuntu SMP Fri Apr 17
01:57:59
> UTC 2009 i686 GNU/Linux/
>
> I apologise for reporting an error that's already been reported
in the
> past, but unfortunately the solutions suggested in those past
threads
> did not work in my case. To address a few of them:
>
> * my PATH (listed below) does not seem to include two MNI
installations
>
//home/virtualuser/freesurfer/bin:/home/virtualuser/freesurfer/fsfast/bin:/home/virtualuser/freesurfer/tktools:/home/virtualuser/freesurfer/mni/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games/
> * the version of FreeSurfer that I installed is the latest disk
> image available on the website
> (freesurfer-Virtualbox-linux-x86-stable-pub-v5.1.0-full) - I did
> not see any dev version that would presumably include any
missing
> libraries presumably implied by the above error
> * I tried updating the Xubuntu inside my VirtualBox, however it
> reports an insufficient space problem that from I can see
does not
> have a trivial fix
>
> Advance thanks for any help!
> Tudor
>
>
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--
Douglas N. Greve, Ph.D.
MGH-NMR Center
gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu>
Phone Number: 617-724-2358
Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
<http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting>
FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html
<http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html>
Outgoing:
ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/
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