Hi Negar

perhaps Nick or PPJ can comment on how much a virtual box needs? In any case, try increasing the ram and see what happens as the error message is pretty clear. Also, if you can run "top" or something similar (/usr/bin/free) to see how memory is actually available on the system that would help

cheers
Bruce

On Sat, 1 Dec 2012, Negar Memarian wrote:

Thank you for your reply, Bruce. I'm running FreeSurfer using a VMWare
virtual machine on Windows 7. I've set the settings of the VM to use 2 CPUs
and 6GB ram. Here is the specifications of my computer hardware:
OS: Windows 7 professional
Processor: Intel Core i7-3770 CPU @ 3.40 GHz
RAM: 8 GB
System type: 64 bit

Please let me know if you need any other info. Many thanks for your help.
-Negar
 

On Sat, Dec 1, 2012 at 11:52 AM, Bruce Fischl <fischl@nmr.mgh.harvard.edu>
wrote:
      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
            <fischl@nmr.mgh.harvard.edu>
            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
                        <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>
                              >
                       
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