Re: [Freesurfer] recon-all unable to make pial and white surfaces

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 fischl@nmr.mgh.harvard.eduwrote:

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 <fischl@nmr.mgh.harvard.edu

...

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
  <negar.memarian@utoronto.ca> 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
  > Freesurfer@nmr.mgh.harvard.edu
  > https://mail.nmr.mgh.harvard.**edu/mailman/listinfo/**freesurfer<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<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.