Hi
If I remember right, there were issues in the past with setting TMPDIR
on an NFS share. Maybe the same problem happens on Lustre?
http://arc.liv.ac.uk/pipermail/gridengine-users/2009-November/027767.html
FWIW, we leave it to the default local /tmp, and it works.
Gus Correa
On 03/03/2014 06:57 PM, Jeff Squyres (jsquyres) wrote:
How about setting TMPDIR to a local filesystem?
On Mar 3, 2014, at 3:43 PM, Beichuan Yan<beichuan....@colorado.edu> wrote:
I agree there are two cases for pure-MPI mode: 1. Job fails with no apparent reason; 2
job complains shared-memory file on network file system, which can be resolved by "
export TMPDIR=/home/yanb/tmp", /home/yanb/tmp is my local directory. The default
TMPDIR points to a Lustre directory.
There is no any other output. I checked my job with "qstat -n" and found that processes
were actually not started on compute nodes even though PBS Pro has "started" my job.
Beichuan
3. Then I test pure-MPI mode: OPENMP is turned off, and each compute node runs 16 processes
(clearly shared-memory of MPI is used). Four combinations of "TMPDIR" and "TCP"
are tested:
case 1:
#export TMPDIR=/home/yanb/tmp
TCP="--mca btl_tcp_if_include 10.148.0.0/16"
mpirun $TCP -np 64 -npernode 16 -hostfile $PBS_NODEFILE ./paraEllip3d
input.txt
output:
Start Prologue v2.5 Mon Mar 3 15:47:16 EST 2014 End Prologue v2.5 Mon
Mar 3 15:47:16 EST 2014
-bash: line 1: 448597 Terminated
/var/spool/PBS/mom_priv/jobs/602244.service12.SC
Start Epilogue v2.5 Mon Mar 3 15:50:51 EST 2014 Statistics
cpupercent=0,cput=00:00:00,mem=7028kb,ncpus=128,vmem=495768kb,walltime
=00:03:24 End Epilogue v2.5 Mon Mar 3 15:50:52 EST 2014
It looks like you have two general cases:
1. The job fails for no apparent reason (like above), or 2. The job complains
that your TMPDIR is on a shared filesystem
Right?
I think the real issue, then, is to figure out why your jobs are failing with
no output.
Is there anything in the stderr output?
--
Jeff Squyres
jsquy...@cisco.com
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