hmmm, that usually means you ran out of memory, which is surprising given
that that step doesn't take very much. Were there other jobs running on
the same machine?
On Mon, 27 Jul 2015, Park, Jung Mi wrote:
Hello Freesurfer expert
I got an error message while running recon-all.
1) subject name gencess
SUBJECTS_DIR: /space/sake/3/users/inverse/subjects
PWD: /autofs/cluster/catanagp/users/jumi/subjects/anat/AD0401AG/anat/scripts
setenv SUBJECTS_DIR /space/sake/3/users/inverse/subjects
cd /autofs/cluster/catanagp/users/jumi/subjects/anat/AD0401AG/anat/scripts
2) the entire command-line executed: in running recon-all
CMD mri_nu_correct.mni --i orig.mgz --o nu.mgz --uchar
transforms/talairach.xfm --n 2
3) the error message generated: mri_binarize --i
./tmp.mri_nu_correct.mni.23502/nu2.mnc --min -1 --o
./tmp.mri_nu_correct.mni.23502/ones.mgz
killed
What should I do for re-run recon-all?
Thank you.
J.Mi
_______________________________________________
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.
