Hi,
As mentioned by the error message:
Please run the "lamboot" command the start the LAM/MPI runtime
Before using Lam, you have to boot it. In my scripts, I've got something
like:
lamboot -v $PBS_NODEFILE
lamrun -v -np $NPROC mdrun mdargs
lamhalt
I don't use Lam often, though, you might need to use different Lam options.
Nicolas
Manik Mayur a écrit :
Hi,
I have till now successfully used openMPI and gromacs together.
Recently I got a cluster where I tried to install openMPI and gromacs
locally as I donot have root priviledges on it. But it turns out that
it already has MPI environment on it (LAM) which I donot want to use
(as the version is quite old.. the cluster still has gcc-3.2.3!).
So after installing openMPI 1.3 and gromacs 4.0.4 on it (in my /home
folder), I tried to execute:
$/home/openmpi/bin/mpirun -np 4 mdrun_4_mpi -s eql_mpi.tpr -o eql_mpi.trr
It gives the following error:
-----------------------------------------------------------------------------
It seems that there is no lamd running on this host, which indicates
that the LAM/MPI runtime environment is not operating. The LAM/MPI
runtime environment is necessary for MPI programs to run (the MPI
program tired to invoke the "MPI_Init" function).
Please run the "lamboot" command the start the LAM/MPI runtime
environment. See the LAM/MPI documentation for how to invoke
"lamboot" across multiple machines.
-----------------------------------------------------------------------------
My question is - Why it still tries to look for LAM environment or
lamd? I will be extremely thankful if somebody gives a hint.
-Manik
--
Graduate student
Microfluidics Lab
Dept. of Mechanical Engg.
IIT Kharagpur
------------------------------------------------------------------------
_______________________________________________
gmx-users mailing list gmx-users@gromacs.org
http://www.gromacs.org/mailman/listinfo/gmx-users
Please search the archive at http://www.gromacs.org/search before posting!
Please don't post (un)subscribe requests to the list. Use the
www interface or send it to gmx-users-requ...@gromacs.org.
Can't post? Read http://www.gromacs.org/mailing_lists/users.php
begin:vcard
fn:Nicolas Sapay
n:Sapay;Nicolas
org:University of Calgary;Biological department
adr:;;2500 University drive NW;Calgary;AB;T2N 1N4;Canada
email;internet:nsa...@ucalgary.ca
title:Post-doctoral fellow
tel;work:403-220-6869
x-mozilla-html:TRUE
url:http://moose.bio.ucalgary.ca/
version:2.1
end:vcard
_______________________________________________
gmx-users mailing list gmx-users@gromacs.org
http://www.gromacs.org/mailman/listinfo/gmx-users
Please search the archive at http://www.gromacs.org/search before posting!
Please don't post (un)subscribe requests to the list. Use the
www interface or send it to gmx-users-requ...@gromacs.org.
Can't post? Read http://www.gromacs.org/mailing_lists/users.php
