Hi All,
I am running Gromacs in a parallel environment using MPICH1.2.7p1.I started
mdrun on 3 nodes,execution is happening correctly but after that mdrun
process is not getting killed,i see mdrun process still present on the
nodes.
I have run mdrun with -debug option,following are the lines at the end of
the log.
--------------
In gmx_finalize. Will try to synchronize the ring
Succesfully did so! Exiting now.
--------------
I have checked "$Gromacs-root/src/gmxlib /network.c" file .I see that in
"gmx_finalize" function , execution enters the " #ifdef MPICH_NAME " block
and exits without calling MPI_Finalize() function.Is that the reason for
MPICH not killing the mdrun process it started on the nodes.Following is the
"gmx_finalize" function in my setup.
void gmx_finalize(t_commrec *cr)
{
int ret;
#ifndef GMX_MPI
gmx_call("gmx_finalize");
#else
#ifdef MPICH_NAME
if (debug)
fprintf(debug,"In gmx_finalize. Will try to synchronize the ring\n");
gmx_sync_ring(cr->nodeid,cr->nnodes,cr->left,cr->right);
if (debug)
fprintf(debug,"Succesfully did so! Exiting now.\n");
thanx(stdlog);
exit(0);
#else
if (debug)
fprintf(debug,"Will call MPI_Finalize now\n");
ret = MPI_Finalize();
if (debug)
fprintf(debug,"Return code from MPI_Finalize = %d\n",ret);
#endif
#endif
}
Thanks,
Sharath.
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