can you check to see how much you actually have free? You are definitely
running out of memory, so something else is using it. What is your
hardware/software environment?
On Sat, 1 Dec 2012,
Negar Memarian wrote:
No, I tried running just one recon and I only have one xterm window open.
Anything I can do to fix this?
On Sat, Dec 1, 2012 at 11:11 AM, Bruce Fischl <[email protected]>
wrote:
6G should be plenty. Do you have anything else running? Maybe
another recon at the same time?
On Fri, 30 Nov 2012, Negar Memarian wrote:
Hi Bruce,
I have 8 GB ram and have assigned 6GB of it to
FreeSurfer. Shall I increase
it to 8? Would that be enough or still too low?
Thank you,
Negar
On Fri, Nov 30, 2012 at 7:31 PM, Bruce Fischl
<[email protected]>
wrote:
Look like it is running out of memory. How
much ram do you have
on that machine?
Bruce
On Nov 30, 2012, at 9:29 PM, Negar Memarian
<[email protected]> wrote:
> Hello,
>
> I ran recon-all -all on my subject. The
process ended after
several minutes with this message at the end:
> recon-all -s 350_FS exited with ERRORS at
Fri Nov 30 17:57:59
PST 2012
>
> I tried loading the pial and white surfaces
for editing using
this command:
> tkmedit 350_FS brainmask.mgz rh.white
-aux-surface lh.white
>
> but looks like these surfaces do not exist
(since the
recon-all exited prematurely). When I check
the recon-all.log
file I do not see any errors except a few
MCSRCH errors. So I
cannot understand what exactly went wrong in
the recon-all. I've
attached the recon-all log file. Can someone
please tell me what
the problem is and how I can fix it?
>
> Many thanks,
> Negar
> p.s. I tried on more than one subject and I
still face the
same issue.
>
>
> Negar Memarian, MASc, PhD
> NSERC Postdoctoral Fellow
> Department of Neurology
> David Geffen School of Medicine at UCLA
>
> <recon-all.log>
>
_______________________________________________
> Freesurfer mailing list
> [email protected]
>
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.
_______________________________________________
Freesurfer mailing list
[email protected]
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.
