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 > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
