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[Jan Stránský <question215877@xxxxxxxxxxxxxxxxxxxxx>]

Question #215877 on Yade changed:
https://answers.launchpad.net/yade/+question/215877

    Status: Open => Answered

Jan Stránský proposed the following answer:
Hello Giulia.

could you please provide us with the script you use?

I personally did some simulations with memory leaks for no obvious
reason..

Thanks
Jan
Dne 3.12.2012 17:56 "Giulia Macaro" <question215877@xxxxxxxxxxxxxxxxxxxxx>
napsal(a):

> New question #215877 on Yade:
> https://answers.launchpad.net/yade/+question/215877
>
> Hello,
>
> I am running a very long simulation, in which a big sphere is loaded on a
> packing of 50,000 smaller spheres settled under gravity force.
> After 4 days of running, the simulation ends without any particular
> reason. In the terminal it is only written "killed".
> I have rerun the same test in the debug mode, compiling Yade with debug=1,
> and then
>
> $ gdb /usr/bin/python
>
> GNU gdb (GDB) 7.1-ubuntu
> Copyright (C) 2010 Free Software Foundation, Inc.
> License GPLv3+: GNU GPL version 3 or later <
> http://gnu.org/licenses/gpl.html>
> This is free software: you are free to change and redistribute it.
> There is NO WARRANTY, to the extent permitted by law.  Type "show copying"
> and "show warranty" for details.
> This GDB was configured as "x86_64-linux-gnu".
> For bug reporting instructions, please see:
> <http://www.gnu.org/software/gdb/bugs/>...
> Reading symbols from /usr/bin/python...(no debugging symbols found)...done.
>
> (gdb) run
> /home/giulia/YetAnotherDynamicEngine/12.07.09_yade/YADE/bin/yade-bzr3040
> -j4 --debug 2012.11.28_1_realSph.py
>
> Starting program: /usr/bin/python
> /home/giulia/YetAnotherDynamicEngine/12.07.09_yade/YADE/bin/yade-bzr3040
> -j4 --debug 2012.11.28_1_realSph.py
> [Thread debugging using libthread_db enabled]
> Welcome to Yade bzr3040 (debug build)
> TCP python prompt on localhost:9000, auth cookie `cesaud'
> [New Thread 0x7fffd6f2c700 (LWP 7675)]
> [New Thread 0x7fffd672b700 (LWP 7676)]
>
> I did not get any information apart from [New Thread ... (LWP ... )] and
>  [Thread ... (LWP ...) exited]
> and then at the end I got
>
> Program terminated with signal SIGKILL, Killed.
> The program no longer exists.
>
> I also tried
> (gdb) thread apply bt full
> But I did not get anything.
>
> And then
> (gdb) bt full
> which gave me
> No stack.
>
> I was recording the CPU and memory usage during the simulation.  The
> machine has 8 cores and 12GB of memory. The CPU was constant around 40%
> (using 4 over 8 cores) but the total memory went from 31% to 99% in 24
> hours, then constant to 99% for the following 3 days, and then the test
> ended.
> I am not erasing any body. I am creating the spheres, apply gravity, wait
> that the deposition ends, create the big sphere, and push the big sphere in
> the packing very slowly.
> I was expecting to use a lot of memory since I have a lot of particles,
> but not that much... is that possible? I am wondering if the ending of the
> simulation is related to the memory.
>
>
> At this point I am also rerunning some periodic triaxial tests, with only
> 5,000 particles. The memory usage has increased from 22 to 32% in 3 hours
> of simulation, and it is still increasing... Has anybody encountered the
> same increasing of memory? Is it expected in Yade?
>
> Thank you
> Giulia
>
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