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Full Discussion: How do I find the correct environment variables for MPI?
Top Forums UNIX for Dummies Questions & Answers How do I find the correct environment variables for MPI? Post 302469195 by EinsteinMcfly on Friday 5th of November 2010 11:36:52 AM
Old 11-05-2010
How do I find the correct environment variables for MPI?
Hello all. I've been trying to install NWCHEM in parallel on a new cluster, and have been able to get it to work on single processors by ignoring any MPI environment variables.

This is, of course, pretty worthless. So I'm starting over and trying to get thing set up right for the MPI. The key variables are:
Code:
 USE_MPI="y"
MPI_LIB="/usr/lib64"
#  LIBMPI="/usr/lib64/OMPI/pgi/libmpi.so" ; export LIBMPI
MPI_INCLUDE="/usr/include"
USE_MPIF="y"

As far as I can tell, the MPI_INCLUDE is supposed to be the place where the mpi.h and/or mpif.h are which I think I have correctly. Also, the MPI_LIB is mean to have all of the libmpixxxxxetc, right? That leaves LIBMPI,which I THOUGH was supposed to be the location of the libmpi.so file, but when I set it that way and try to compile I get:
Code:
File with unknown suffix passed to linker: /usr/lib64/OMPI/pgi
/usr/lib64/OMPI/pgi: file not recognized: Is a directory
make: *** [all] Error 2

I get this error whether I include the "libmpi.so" part in the path or not. It appears that it's not finding what it needs in that folder, but then what is it that it's supposed to find?

Thanks for any help.

EMF

---------- Post updated 11-05-10 at 10:36 AM ---------- Previous update was 11-04-10 at 11:58 PM ----------

Sorry for the lack of proper code.

Is this in the correct forum? Is there a parallel forum that I'm missing?
Last edited by pludi; 11-05-2010 at 03:15 AM.. Reason: code tags, please...
 

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LEARN ABOUT DEBIAN

orte-restart

OMPI-RESTART(1) 						     Open MPI							   OMPI-RESTART(1)

NAME

       ompi-restart, orte-restart - Restart a previously checkpointed parallel job using the Open PAL Checkpoint/Restart Service (CRS)

       NOTE:  ompi-restart, and orte-restart are all exact synonyms for each other. Using any of the names will result in exactly identical behav-
       ior.

SYNOPSIS

       ompi-restart [ options ] <GLOBAL SNAPSHOT HANDLE>

Options
       ompi-restart will attempt to restart a previously checkpointed  parallel  job  from  the  global  snapshot  handle  reference  returned	by
       ompi_checkpoint.

       <GLOBAL SNAPSHOT HANDLE>
		 The  global snapshot handle reference returned by ompi_checkpoint, used to restart the job. This is required to be the last argu-
		 ment to this command.

       -h | --help
		 Display help for this command

       -p | --preload
		 Preload the checkpoint files on the remote systems before restarting the application. Disabled by default.

       --fork	 Fork off a new process, which is the restarted process. By default, the restarted process will replace ompi-restart.

       -s | --seq
		 The sequence number of the checkpoint to restart from. By default, the most recent sequence number is used (specified by -1).

       -hostfile | --hostfile
		 The hostfile from which to restart the application. Useful in unscheduled environments. (Same behavior as --machinefile option)

       -machinefile | --machinefile
		 The machinefile from which to restart the application. Useful in unscheduled environments. (Same behavior as --hostfile option)

       -v | --verbose
		 Enable verbose output for debugging.

       -gmca | --gmca <key> <value>
		 Pass global MCA parameters that are applicable to all contexts. <key> is the parameter name; <value> is the parameter value.

       -mca | --mca <key> <value>
		 Send arguments to various MCA modules.

DESCRIPTION

       ompi-restart can be invoked multiple, non-overlapping times. This allows the user to restart a previously running parallel job.

SEE ALSO

	 orte-ps(1), orte-clean(1), ompi-checkpoint(1), opal-checkpoint(1), opal-restart(1), opal_crs(7)

1.4.5								   Feb 10, 2012 						   OMPI-RESTART(1)
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