Hi Barry,
The problem is the line:
ncpus=`wc -l $PBS_NODEFILE`
wc will print out the file name after the count. So ncpus gets "16 /
var/spool/torque/aux//350.wc01" and your mpirun command will look like:
mpirun -np 16 /var/spool/torque/aux//350.wc01 /home/test/hpcc-1.0.0/hpcc
So mpirun will try to execute /var/spool/torque/aux//350.wc01
A solution to this is that Open MPI will run on every available slot
if -np is not passed. So you could just use the script:
HPCC_HOME=/home/test/hpcc-1.0.0
mpirun $HPCC_HOME/hpcc
This will launch one process on every CPU reported by Torque.
Alternatively, you could have wc read from stdin instead of from a file:
ncpus=`wc -l < $PBS_NODEFILE`
this will avoid the filename being printed.
Hope this helps,
Tim
On Apr 1, 2007, at 9:16 AM, Barry Evans wrote:
Hello,
Having a bit of trouble running Open MPI 1.2 under Torque 2.1.8.
My Script contains the following:
-----------------------------------------------
HPCC_HOME=/home/test/hpcc-1.0.0
ncpus=`wc -l $PBS_NODEFILE`
mpirun -np $ncpus $HPCC_HOME/hpcc
-----------------------------------------------
When I try to run on 4 nodes, 4 cpus each I receive the following
in my err file:
[node003:04409] [0,0,4] ORTE_ERROR_LOG: Not found in file
odls_default_module.c at line 1188
[node008:06691] [0,0,1] ORTE_ERROR_LOG: Not found in file
odls_default_module.c at line 1188
[node007:04352] [0,0,2] ORTE_ERROR_LOG: Not found in file
odls_default_module.c at line 1188
----------------------------------------------------------------------
----
Failed to find or execute the following executable:
Host: node007
Executable: /var/spool/torque/aux//350.wc01
Cannot continue.
----------------------------------------------------------------------
----
[no-------------------------------------------------------------------
-------
Failed to find or execute the following executable:
Host: node004
Executable: /var/spool/torque/aux//350.wc01
Cannot continue.
----------------------------------------------------------------------
----
de004:04364] [0,0,3] ORTE_ERROR_LOG: Not found in file
odls_default_module.c at line 1188
----------------------------------------------------------------------
----
Failed to find or execute the following executable:
Host: node003
Executable: /var/spool/torque/aux//350.wc01
Cannot continue.
----------------------------------------------------------------------
----
----------------------------------------------------------------------
----
Failed to find or execute the following executable:
Host: node008
Executable: /var/spool/torque/aux//350.wc01
Cannot continue.
----------------------------------------------------------------------
----
[node007:04352] [0,0,2] ORTE_ERROR_LOG: Not found in file orted.c
at line 588
[node008:06691] [0,0,1] ORTE_ERROR_LOG: Not found in file orted.c
at line 588
[node004:04364] [0,0,3] ORTE_ERROR_LOG: Not found in file orted.c
at line 588
[node003:04409] [0,0,4] ORTE_ERROR_LOG: Not found in file orted.c
at line 588
Has anyone seen this before? It seems odd that openmpi would be
trying to execute what is effectively the host file. I stuck a
sleep in to make sure the file was being distributed, and sure
enough, it was there. I am able to run mvapich through torque
without issue and openmpi from the command line.
Cheers,
Barry Evans
Technical Manager
OCF plc
+44 (0)7970 148 121
bev...@ocf.co.uk
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