Hi, When I run an MPI command through the terminal the programs runs fine on the compute node specified in hosts.txt.
However, when I put that command in a PBS script, if says that the compute node is not defined in the job manager's list. However, that node is actually defined in the job manager. Please see the output below mahmood@cluster:tran-bt-o-40$ cat submit.tor #!/bin/bash #PBS -V #PBS -q default #PBS -j oe #PBS -l nodes=1:ppn=15 #PBS -N job-1 #PBS -o /home/mahmood/tran-bt-o-40/cc-bt-cc-163-20.out cd $PBS_O_WORKDIR /share/apps/computer/openmpi-2.0.0/bin/mpirun -hostfile hosts.txt -np 15 /share/apps/chemistry/siesta-4.0/tpar/transiesta < trans-cc-bt-cc-163-20.fdf mahmood@cluster:tran-bt-o-40$ cat cc-bt-cc-163-20.out -------------------------------------------------------------------------- A hostfile was provided that contains at least one node not present in the allocation: hostfile: hosts.txt node: compute-0-1 If you are operating in a resource-managed environment, then only nodes that are in the allocation can be used in the hostfile. You may find relative node syntax to be a useful alternative to specifying absolute node names see the orte_hosts man page for further information. -------------------------------------------------------------------------- mahmood@cluster:tran-bt-o-40$ cat hosts.txt compute-0-1 compute-0-2 mahmood@cluster:tran-bt-o-40$ pbsnodes -l all compute-0-0 down compute-0-1 free compute-0-2 free compute-0-3 free As you can see, compute-0-1 has free cores and it is defined for the manager. Any idea? Regards, Mahmood
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