Can you use the interactive mode of PBS to get 5 cores on 1 node? IIRC, "qsub -I ..." ?
Then you get a shell prompt with your allocated cores and can run stuff interactively. I don't know if your site allows this, but interactive debugging here might be *significantly* easier than try to automate some debugging. On Oct 25, 2010, at 1:35 PM, Jack Bryan wrote: > thanks > > I have to use #PBS to submit any jobs in my cluster. > I cannot use command line to hang a job on my cluster. > > this is my script: > -------------------------------------- > #!/bin/bash > #PBS -N jobname > #PBS -l walltime=00:08:00,nodes=1 > #PBS -q queuename > COMMAND=/mypath/myprog > NCORES=5 > > cd $PBS_O_WORKDIR > NODES=`cat $PBS_NODEFILE | wc -l` > NPROC=$(( $NCORES * $NODES )) > > mpirun -np $NPROC --mca btl self,sm,openib $COMMAND > > ------------------------------------------- > > Where should I put the (gdb --batch -ex 'bt full' -ex 'info reg' -pid > ZOMBIE_PID) in the script ? > And how to get ZOMBIE_PID from the script ? > > Any help is appreciated. > > thanks > > Oct. 25 2010 > > Date: Mon, 25 Oct 2010 19:24:35 +0200 > From: j...@59a2.org > To: us...@open-mpi.org > Subject: Re: [OMPI users] Open MPI program cannot complete > > On Mon, Oct 25, 2010 at 19:07, Jack Bryan <dtustud...@hotmail.com> wrote: > I need to use #PBS parallel job script to submit a job on MPI cluster. > > Is it not possible to reproduce locally? Most clusters have a way to submit > an interactive job (which would let you start this thing and then inspect > individual processes). Ashley's Padb suggestion will certainly be better in > a non-interactive environment. > > Where should I put the (gdb --batch -ex 'bt full' -ex 'info reg' -pid > ZOMBIE_PID) in the script ? > > Is control returning to your script after rank 0 has exited? In that case, > you can just put this on the next line. > > How to get the ZOMBIE_PID ? > > "ps" from the command line, or getpid() from C code. > > Jed > > _______________________________________________ users mailing list > us...@open-mpi.org http://www.open-mpi.org/mailman/listinfo.cgi/users > _______________________________________________ > users mailing list > us...@open-mpi.org > http://www.open-mpi.org/mailman/listinfo.cgi/users -- Jeff Squyres jsquy...@cisco.com For corporate legal information go to: http://www.cisco.com/web/about/doing_business/legal/cri/
