Hmm - I think both of you are using OpenMPI. Do you have another MPI
library (mpich, mvapich, intel mpi) that you can test with?
-Dan
On Fri, May 3, 2019 at 5:12 AM Margarita I. Bernal-Uruchurtu
<mabel.uaem.mx> wrote:
>
> Hi All!
>
> Charo del Genio's message struck me this morning as something I've also
> been experiencing.
> It has been quite difficult to follow due to its randomness.
> I'm using sander with SEBOMD and the error seems to come quite unexpectedly
> and is not related to convergence in SEBOMD. It has happened with systems
> of different sizes and in different thermodynamical conditions.
> The strange thing is that I can build a restart file from the last stored
> configuration and continue the trajectory without problems.
> And also as posted by Charo, it happens in different nodes in the local
> cluster.
>
> -----------
> /sw/target/CentOS-7.5-avx2/prl/openmpi/openmpi-2.1.5_gcc-7.3.0_C++-bindings/bin/mpirun
>
>
> Program received signal SIGSEGV: Segmentation fault - invalid memory
> reference.
>
>
> Backtrace for this error:
>
> #0 0x7f7e9fc6c2ef in ???
>
> #1 0x7f7e9f2d5e9d in ???
>
> #2 0x7f7e9f28559b in ???
>
> #3 0x7f7ea0db0d54 in ???
>
> #4 0x7f7ea0e0a309 in ???
>
> #5 0x7f7ea0dc51b9 in ???
>
> #6 0x7f7ea11cd5e2 in ???
>
> #7 0x5b5360 in ???
>
> #8 0x574684 in ???
>
> #9 0x577394 in ???
>
> #10 0x7e4097 in ???
>
> #11 0x53b8e4 in ???
>
> #12 0x4ea46f in ???
>
> #13 0x4de8f2 in ???
>
> #14 0x4de9e4 in ???
>
> #15 0x7f7e9fc58444 in ???
>
> #16 0x4592e6 in ???
>
> #17 0xffffffffffffffff in ???
>
> --------------------------------------------------------------------------
>
> mpirun noticed that process rank 0 with PID 60283 on node nnode037 exited
> on signal 11 (Segmentation fault).
>
> --------------------------------------------------------------------------
>
>
> Science is built with facts as a house is with stones, but a collection of
> facts is no more a science than a heap of stones is a house. - Henri
> Poincaré
> °°°°°°°°°°°°°°°°°°°°°°°°°°°°°°°°°°°°°°°°°°°°°°°°°
> Margarita I. Bernal-Uruchurtu
> Centro de Investigaciones Química, UAEM
> +52.777.329.7000 ext 6003
> mabel.uaem.mx
> _______________________________________________
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Received on Fri May 03 2019 - 05:30:02 PDT
