Login or Register to Ask a Question and Join Our Community


UNIX for Advanced & Expert Users

openmpi - initialization failed

Login to Discuss or Reply to this Discussion in Our Community

 
Thread Tools Search this Thread
Top Forums UNIX for Advanced & Expert Users openmpi - initialization failed
# 1  
Old 09-08-2012
openmpi - initialization failed
Hi everybody,

my problem is the following:
I'm trying to run an openmpi program on a cluster (atlasz.elte.hu, it's in hungarian, but you can try google translate),
but I always got this error:

Fatal error in MPI_Init: Other MPI error, error stack:
MPIR_Init_thread(394)...........: Initialization failed
MPID_Init(121)..................:
MPIDI_Populate_vc_node_ids(1219):
MPID_Get_max_node_id(798).......: PMI_KVS_Commit returned -1

I am doing it according to the manual, for example, here is my script:

#!/bin/bash

mpirun.openmpi /users/jkobori/boxfit/out/boxfit boxfitsettings.txt

which I am runnig with the sbatch -p hpc2009 -N 4 -B 2:4:1 s.sh line.
This is the way it should be done, but it doesn't work for me.
Can You help me out?

If any additional info is needed, please, tell me.

Regards,
Joe
Login or Register to Ask a Question

Previous Thread | Next Thread

10 More Discussions You Might Find Interesting

1. UNIX for Advanced & Expert Users

Trying to use a convoluted for loop with VLC and Parallel or OpenMPI with no success. Help?

I have about 12,000,000 mod files I'm trying to turn into a test of "unlimited cloud storage" by running them all through VLC and blowing them into mp3 files. I can get this to work serially but when trying to use openMPI or Parallel, something in the syntax is tripping it up some. Here is an... (1 Reply)
Discussion started by: sparticus414
1 Replies

2. Shell Programming and Scripting

Variable initialization

Hallo Team, I have a simple request and i would appreciate your help. I would like to use two dates in my script lets: A=$(date +"%d %B %Y") echo $A 23 June 2014 That's awesome now we cooking. Now i want B to be on the previous month eg: echo $B Should give me 23 May 2014 I would... (9 Replies)
Discussion started by: kekanap
9 Replies

3. Programming

Cannot run MPI job across nodes using OpenMPI in F17

I am new in Linux and clustering. I am setting up a Beowulf Cluster using several PCs according to this guide "Beowulf How-To" I have setup and configure accordingly except for NFS part. Because I am not requiring it for my application. I have set my ssh to login each other without password. I... (1 Reply)
Discussion started by: nsw1216
1 Replies

4. Shell Programming and Scripting

Initialization error

new to shell scripting. below line is showing error in script. ${parameter:=word} in the o/p first it shows the below error. word: not found. and then in next line print "word" ---------------- p2: word: not found. word --------------------------- OS is AIX and shell is... (12 Replies)
Discussion started by: scriptor
12 Replies

5. Shell Programming and Scripting

Declaring variables without initialization

I get an error in my shell script that line 1: )unexpected. Line 1 in my script (using sh by the way) is the variable I declared but did not initialize it. result= Is this wrong? How can I fix it? I am using the variable later in the program, so I figured I could just declare it first... (4 Replies)
Discussion started by: itech4814
4 Replies

6. Programming

Problem with OpenMPI

OK, I hope you can help me here: I'm trying to crack a hash using John the Ripper. (BindShell.Net: John The Ripper MPI Patch) I'm runnig it on a cluster system using OpenMPI. But it is not working properly. If i try to run it, i get the following error: Any idea what can be wrong? Happen on... (3 Replies)
Discussion started by: chrisperry
3 Replies

7. Shell Programming and Scripting

little confusion about variable initialization.

Whenever i execute the below scriptlet with out proper file name it deletes /tmp directory . I guess this is because value of variable a didnt get initialized and there for rm -rf /tmp/ get executed and entire /tmp directory get deleted. How would i avoid any empty variables to be used in... (9 Replies)
Discussion started by: pinga123
9 Replies

8. Programming

/usr/bin/ld: warning: libgfortran.so.1, needed by /opt/openmpi/lib/libmpi_f90.so, may

hello, i get these warnings on make(ing) /usr/bin/ld: warning: libgfortran.so.1, needed by /opt/openmpi/lib/libmpi_f90.so, may conflict with libgfortran.so.3 /usr/bin/ld: warning: libgfortran.so.1, needed by /usr/lib/gcc/x86_64-redhat-linux6E/4.3.2/../../../liblapack.a, may conflict with... (1 Reply)
Discussion started by: sreekar
1 Replies

9. Programming

Char initialization

Hi All, char a="\0"; a) a contains \0 a contains garbage value b) a contains \ a contains 0 a contains garbage value Pls, let me know correct result is a or b. I guess a. Thanks, Naga:cool: (2 Replies)
Discussion started by: Nagapandi
2 Replies

10. Programming

Struct Initialization

Hi We are using a code generator for initializing structures with the #define macro. Compiling it with the GCC 2.8.1 (with -ansi) it OK. But when we are using the SUN C 5.0 compiler it screams. Following is a code sample: #include <stdlib.h> #include <stdio.h> typedef struct TEST3 {... (4 Replies)
Discussion started by: amatsaka
4 Replies
Login or Register to Ask a Question

LEARN ABOUT SUSE

ipcluster

IPCLUSTER(1)															      IPCLUSTER(1)

NAME

       ipcluster - IPython parallel computing cluster control tool

SYNOPSIS

       ipcluster {piexec,local,mpirun,pbs,ssh} [options]

DESCRIPTION

       ipcluster is a control tool for IPython's parallel computing functions.

       IPython	cluster  startup. This starts a controller and engines using various approaches. Use the IPYTHONDIR environment variable to change
       your IPython directory from the default of .ipython or _ipython. The log and security subdirectories of your IPython directory will be used
       by this script for log files and security files.

POSITIONAL ARGUMENTS

       The first positional argument should be one of: {mpiexec, local, mpirun, pbs, ssh}, which are the available cluster types.

       For detailed help on each, type "ipcluster TYPE --help". Briefly:

	 local	       run a local cluster
	 mpirun        run a cluster using mpirun (mpiexec also works)
	 mpiexec       run a cluster using mpiexec (mpirun also works)
	 pbs	       run a pbs cluster
	 ssh	       run a cluster using ssh, should have ssh-keys setup

OPTIONS

       -h, --help
	      show help message and exit

EXAMPLE

       ipcluster local -n 4

       This command will start 4 IPython engines on the local computer.

SEE ALSO

       ipython(1),ipcontroller(1),ipengine(1)

AUTHOR

       ipcluster is a tool that ships with IPython, created by the IPython Development Team.

       This  manual  page  was written by Stephan Peijnik <debian@sp.or.at>, for the Debian project (but may be used by others).  Modified by Fer-
       nando Perez <Fernando.Perez@berkeley.edu> for inclusion in IPython.

								 October 28, 2008						      IPCLUSTER(1)