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 <gr...@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 > > > > > > _______________________________________________ > > Freesurfer mailing list > > Freesurfer@nmr.mgh.harvard.edu > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > -- > Douglas N. Greve, Ph.D. > MGH-NMR Center > gr...@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/ > > _______________________________________________ > 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. > >
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