Hi folks,

I am sorry if this question had been asked before, but after ten days of searching/working on the system, I surrender :(. We try to use mpirun to run abinit (abinit.org) which in turns will call an input file to run some simulation. The command to run is pretty simple

$ mpirun -np 4 /opt/apps/abinit/bin/abinit < input.files >& output.log

We ran this command on a server with two quad core x5420 and 16GB of memory. I called only 4 core, and I guess in theory each of the core should take up to 2GB each.

In the output of the log, there is something about memory:

P This job should need less than                     717.175 Mbytes of memory.
  Rough estimation (10% accuracy) of disk space for files :
  WF disk file :     69.524 Mbytes ; DEN or POT disk file :     14.240 Mbytes.

So basically it reported that the above job should not take more than 718MB each core.

But I still have the Segmentation Fault error:

mpirun noticed that process rank 0 with PID 16099 on node biobos exited on signal 11 (Segmentation fault).

The system already has limits up to unlimited:

$ cat /etc/security/limits.conf | grep -v '#'
* soft memlock unlimited
* hard memlock unlimited

I also tried to run

$ ulimit -l unlimited

before the mpirun command above, but it did not help at all.

If we adjust the parameters of the input.files to give the reported mem per core is less than 512MB, then the job runs fine.

Please help,