Chenchen,
On Tuesday, October 4, 2016 at 5:16:12 PM UTC-4, Chenchen Liu wrote:
>
>
> ***Memory allocation failed for SetupCtrl: maxvwgt. Requested size:
> 18446744073709551608 bytes
>
This line says that you are asking for 18446744073 GB of memory...
> It is said that there is a bottleneck for METIS, and it is better to use
> p4est. However, p4est does not support 1D problem, which is what I am
> working on. Therefore, I have to work out with METIS. I am wondering where
> is my problem when running step-17 or 18 on cluster. The softwares are
> supposed to be installed correctly. Here I attach my pbs file, and I hope
> anyone could help me check it. Or anyone can share the pbs file to run
> step-17 with multiple nodes?
>
> Did you modify step-17?
> ==========================
>
> #!/bin/sh
>
> #PBS -q MyName
>
> #PBS -l nodes=1:ppn=4
>
This asks for only 4 processors on 1 node.
> #PBS -l pmem=15000MB
>
> #PBS -l walltime=20:00:00:00
>
>
> module load cmake-2.8
>
module load dealii-8.3.0
>
>
> cd $PBS_O_WORKDIR
>
>
> NO_OF_NODES=`cat $PBS_NODEFILE | egrep -v '^#'\|'^$' | wc -l | awk
> '{print $1}'`
>
> NODE_LIST=`cat $PBS_NODEFILE`
>
>
> time cmake . < CMakeLists.txt >LOG
>
> time make
>
Why are you compiling in batch mode? Do it interactively and make sure that
everything is correct and then run the executable in batch.
> time mpirun step-17
>
Don't you need to do something like mpirun -np 4 ./step-17
Best,
Bruno
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