Am 29.09.2008 um 23:15 schrieb Doug Reeder:
It sounds like you may not have setup paswordless ssh between all
your nodes.
If you have a tight intergration of Open MPI and use the task manager
from torque this shiouldn't be necessary.
Continued below...
Doug Reeder
On Sep 29, 2008, at 2:12 PM, Zhiliang Hu wrote:
At 10:45 PM 9/29/2008 +0200, you wrote:
Am 29.09.2008 um 22:33 schrieb Zhiliang Hu:
At 07:37 PM 9/29/2008 +0200, Reuti wrote:
"-l nodes=6:ppn=2" is all I have to specify the node requests:
this might help: http://www.open-mpi.org/faq/?category=tm
Essentially the examples given on this web is no difference from
what I did.
Only thing new is, I suppose "qsub -I " is for interactive mode.
When I did this:
qsub -I -l nodes=7 mpiblastn.sh
It hangs on "qsub: waiting for job 798.nagrp2.ansci.iastate.edu to
start".
UNIX_PROMPT> qsub -l nodes=6:ppn=2 /path/to/mpi_program
where "mpi_program" is a file with one line:
/path/to/mpirun -np 12 /path/to/my_program
Can you please try this jobscript instead:
#!/bin/sh
set | grep PBS
/path/to/mpirun /path/to/my_program
All should be handled by Open MPI automatically. With the "set"
bash
command you will get a list with all defined variables for further
analysis; and where you can check for the variables set by Torque.
-- Reuti
"set | grep PBS" part had nothing in output.
Strange - you checked the .o end .e files of the job? - Reuti
There is nothing in -o nor -e output. I had to kill the job.
I checked torque log, it shows (/var/spool/torque/server_logs):
09/29/2008 15:52:16;0100;PBS_Server;Job;799.xxx.xxx.xxx;enqueuing
into default, state 1 hop 1
09/29/2008 15:52:16;0008;PBS_Server;Job;799.xxx.xxx.xxx;Job Queued
at request of z...@xxx.xxx.xxx, owner = z...@xxx.xxx.xxx, job name =
mpiblastn.sh, queue = default
09/29/2008 15:52:16;0040;PBS_Server;Svr;xxx.xxx.xxx;Scheduler sent
command new
09/29/2008 15:52:16;0008;PBS_Server;Job;799.xxx.xxx.xxx;Job
Modified at request of schedu...@xxx.xxx.xxx
09/29/2008 15:52:27;0008;PBS_Server;Job;799.xxx.xxx.xxx;Job
deleted at request of z...@xxx.xxx.xxx
09/29/2008 15:52:27;0100;PBS_Server;Job;799.xxx.xxx.xxx;dequeuing
from default, state EXITING
09/29/2008 15:52:27;0040;PBS_Server;Svr;xxx.xxx.xxx;Scheduler sent
command term
09/29/2008 15:52:47;0001;PBS_Server;Svr;PBS_Server;is_request, bad
attempt to connect from 172.16.100.1:1021 (address not trusted -
check entry in server_priv/nodes)
As you blank out some addresses: have the nodes and the headnode one
or two network cards installed? All the names like node001 et al. are
known on neach node by the correct address? I.e. 172.16.100.1 = node001?
-- Reuti
where the server_priv/nodes has:
node001 np=4
node002 np=4
node003 np=4
node004 np=4
node005 np=4
node006 np=4
node007 np=4
which was set up by the vender.
What is "address not trusted"?
Zhiliang
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