it's probably not enough to run gunzip, which for some reason takes *lots* of ram On Tue, 29 Jan 2013, Nick Schmansky wrote:
> Knut, > > I noticed in the log that there was only 284KB of free memory available, > which is not enough to run freesurfer, although it would seem like it > should be enough to run the mri_convert command. Can you free-up more > memory and re-run? Also, I noticed that you're running the Centos6 > build, what OS are you running? Fedora 18? Does the v5.2 Centos4 > freesurfer build work on that? > > Nick > > On Tue, 2013-01-29 at 19:30 +0100, Knut J Bjuland wrote: >> When I run recon-all using freesurfer 5.2 latest beta it will segment >> crash. >> >> Linux mypc 3.7.4-204.fc18.x86_64 #1 SMP Wed Jan 23 16:44:29 UTC 2013 >> x86_64 x86_64 x86_64 GNU/Linux >> /home/knutjbj/freesurfer/ernie >> >> mri_convert /usr/local/freesurfer/subjects/sample-001.mgz >> /home/knutjbj/freesurfer/ernie/mri/orig/001.mgz >> >> mri_convert /usr/local/freesurfer/subjects/sample-001.mgz >> /home/knutjbj/freesurfer/ernie/mri/orig/001.mgz >> Segmentation fault >> Linux super-knut 3.7.4-204.fc18.x86_64 #1 SMP Wed Jan 23 16:44:29 UTC >> 2013 x86_64 x86_64 x86_64 GNU/Linux >> >> recon-all -s ernie exited with ERRORS at ti. 29. jan. 19:25:15 +0100 2013 >> >> For more details, see the log file >> /home/knutjbj/freesurfer/ernie/scripts/recon-all.log >> To report a problem, see >> http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting >> >> Knut J >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > _______________________________________________ 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.
