sorry, I have no idea

On 05/19/2016 11:35 AM, S.V.Shepherd [work] wrote:
> It happens when I run more than 3-4 analyses at once. It appears to be
> sensitive to other instances of Matlab being open. however, I don't
> see clear evidence I'm memory limited. for example, I'm currently
> running four selxavg in parallel, along with a separate melodic
> analysis. One more would cause a crash.
>
> free -g returns, in the "free" column:
>   mem: 4
>   buffers/cache 480
>   swap 127
>
> i think this means I have 480gb free, no?
>
> stephen
>
>
>
>
> _stephen v. shepherd   phd_
> The Rockefeller University / 1230 York Avenue / New York NY 10065-6307
> USA // 212.327.7699
>
> On Thu, May 19, 2016 at 11:03 AM, Douglas N Greve

> <greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>> wrote:
>
>     Does it always die like that? It may be out of memory.
>
>     On 05/18/2016 01:50 PM, S.V.Shepherd [work] wrote:
>     > Hello,
>     >
>     > When running more than 3 analyses in parallel in FreeSurfer 5.3,
>     I am
>     > getting matlab crashes. Mathworks has politely declined to provide
>     > support unless I can replicate outside FsFAST.
>     >
>     > The errors are variants of
>     >
>     > """
>     >
>     > OMP: Error #34: System unable to allocate necessary resources
>     for OMP
>     > thread:
>     > OMP: System error #11: Resource temporarily unavailable
>     >  [...]
>     > MATLAB is exiting because of fatal error
>     > Killed
>     > ------------------------------------------
>     > ERROR: fast_selxavg3() failed\n
>     >
>     > """
>     >
>     > thread_monitor Resource temporarily unavailable in pthread_create
>     > *** glibc detected *** /usr/local/MATLAB/R2015b/bin/glnxa64/MATLAB:
>     > double free or corruption (!prev): 0x00007f585308c390 ***
>     > Segmentation fault (core dumped)
>     >
>     > """
>     >
>     > I have copied Matlab version info below. Any tips on how to
>     troubleshoot?
>     >
>     >
>     ----------------------------------------------------------------------------------------------------
>     > MATLAB Version: 8.6.0.267246 (R2015b)
>     > MATLAB License Number: 1098672
>     > Operating System: Linux 2.6.32-573.18.1.el6.x86_64 #1 SMP Wed Jan 6
>     > 11:20:49 EST 2016 x86_64
>     > Java Version: Java 1.7.0_60-b19 with Oracle Corporation Java
>     > HotSpot(TM) 64-Bit Server VM mixed mode
>     >
>     ----------------------------------------------------------------------------------------------------
>     > MATLAB Version 8.6         (R2015b)
>     > Computer Vision System Toolbox Version 7.0  (R2015b)
>     > Image Processing Toolbox Version 9.3  (R2015b)
>     > Optimization Toolbox Version 7.3         (R2015b)
>     > Signal Processing Toolbox Version 7.1  (R2015b)
>     > Statistics and Machine Learning Toolbox Version 10.1        (R2015b)
>     >
>     >
>     >
>     >
>     >
>     > _stephen v. shepherd   phd_
>     > The Rockefeller University / 1230 York Avenue / New York NY 10065-6307

>     > USA // 212.327.7699 <tel:212.327.7699>
>     >
>     >
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>     --
>     Douglas N. Greve, Ph.D.
>     MGH-NMR Center
>     greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>
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--
Douglas N. Greve, Ph.D.
MGH-NMR Center
greve@nmr.mgh.harvard.edu
Phone Number: 617-724-2358
Fax: 617-726-7422

Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2
www.nmr.mgh.harvard.edu/facility/filedrop/index.html
Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/

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