Hi Jon - I suspect that the source of the problem is before the -path step, but your trac-all.log only has output from that step. Did you by any chance move the original trac-all.log file somewhere else? Typically with every new invocation of trac-all the new output is just appended at the end of the log file.


a.y

From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Whitney, Jon <jon.whitney@ert.com>
Sent: Monday, October 29, 2018 4:59:17 PM
To: freesurfer@nmr.mgh.harvard.edu
Cc: Walia, Piyush
Subject: Re: [Freesurfer] Segmentation fault
 

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I got someone to help me, and based on what they told me the trac-all.log is where the debug information gets stored (I tried using -x +x in my bash command script and it only gave me upper level debugging information), so I have attached the trac-all.log file.  I also was able to get help from someone who was able to save the core dump for when the system crashed, but it is extremely large (1.7GB). I can upload the core dump file if that would be helpful.  I watched the system resources while the program ran, and I noticed that the memory usage only got up to 4% while the CPU usage was 100%, so I don't think I'm running out of memory.  We looked at the core dump file, and my linux expert friend suggested that it may be a memory overflow error because it references memory at 0x0000000etc.

image.png
unfortunately, without the source code to help us interpret the core dump, I don't think I can provide much more in the way of specific information.  Please let me know if there's somewhere I can upload the core dump if you want to look at it.

Thanks!

On Mon, Oct 29, 2018 at 1:32 AM fsbuild <fsbuild@contbay.com> wrote:

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Hello Jon,

Can you get any stack or backtrace information after the segfault occurs ?, e.g., Mac OS has the option to display the crash report with a trace.  On Linux you could run thru gdb and get a back trace.   This would help us to see where the code is exiting.

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Jon Whitney
Image Analysis Engineer
ERT | 26801 Miles Rd | Cleveland, OH 44128 | USA
ert.com

 




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