Vytvorené:10. apríla 2020
Aktualizované:15. novembra 2021
@Michal Hvizdák
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Prihlásenie k GRID UNIZA,dostupné moduly, spustenie úlohy, kontrola jednotlivých úlohy a vymazanie úlohy z fronty. 

Prihlásenie 

ssh user@login.hpc.uniza.sk

Enviroment moduly 

------------------------------- /etc/modulefiles -------------------------------
Mathematica/10.4                 cuda/9.0
Mathematica/11.1                 devtools/2
Mathematica/11.2                 espresso/3.2.0(default)
Mathematica/11.3                 fds/6.1
Mathematica/12.0(default)        fds/6.7(default)
Python/2.7.8(default)            intel/composerxe_2013
Python/3.3.6                     intel/composerxe_2013_old
adina/dmp                        matlab/R2015b(default)
adina/new(default)               matlabtah/R2015b
adina/smp                        matlabtah/R2017a
annovar/annovar-current(default) matlabtah/R2017b(default)
ansys/2019R1                     mpich/3.0.4/14.4
ansys/v145                       octave/3.6.4(default)
ansys/v150                       openmpi/1.10.4-devtools2
ansys/v160                       openmpi/1.6.3(default)
ansys/v162                       openmpi/1.8.3
ansys/v170                       openmpi/1.8.4
ansys/v172                       openmpi/1.8.4-i
ansys/v192(default)              openmpi-x86_64
atlas/3.10.2(default)            pgi/14.4(default)
boost/1.53                       pgi/2014
boost/1.54                       root/5.34.14(default)
boost/1.57(default)              simpack/9.8.2
comsol/v50                       simpack/9.9.2(default)
comsol/v52(default)              xrootd/3.2.7(default)
cuda/6.5(default)                xrootd/3.3.6

$module load openmpi

$module purge

Spustenie úlohy

Kompilácia 

$module load openmpi
$mpicc program.c

Zadanie úlohy do fronty 

$ qsub s1.pbs

Skript pre sériovú úlohu 

#!/bin/sh
# nazov vo fronte
#PBS -N UNIZA_JOB

# skript ziada
#PBS -l nodes=1:ppn=1,pmem=100mb,walltime=00:10:00

# Nazov projektu
#PBS -A UNIZA_PROJ

# vypoctova fronta - batch
#PBS -q serial

# po ukonceni error file -  "Simple.err"
#PBS -e Simple.err

# stdout do suboru -  "Simple.result"
#PBS -o Simple.result

# zaslanie emailu -  b begin, e end, a abort,
# neposielat email (n/none).
#PBS -m ae

# zaslanie emailu na adresu
#PBS -M user@uniza.sk

# kopirovanie dat na vstupny disk (/localscratch)
##cp my_* $TMPDIR
##cd $TMPDIR

/apps/run/program

Skript pre paralelnú úlohu s openmpi 

#!/bin/sh
# nazov vo fronte
#PBS -N UNIZA_JOB_xhpl

# skript ziada
#PBS -l nodes=4:ppn=12,pmem=2gb,walltime=1:10:00

# Nazov projektu
#PBS -A UNIZA_PROJ

# vypoctova fronta - batch
#PBS -q parallel

# po ukonceni error file -  "Simple.err"
#PBS -e Simple.err

# stdout do suboru -  "Simple.result"
#PBS -o Simple.result

# zaslanie emailu -b begin, -e end, -a abort
# neposielat email (-n/none).
#PBS -m ae

# zaslanie emailu na adresu
#PBS -M user@uniza.sk

options="> OUT"

cd /work/user/hpl

application="/work/user/hpl/xhpl"

. /etc/profile.d/modules.sh
module purge
module load openmpi/1.6.3

# Príklad využitia premenných (PBS/Torque)
np=$PBS_NP
ppn=$PBS_NUM_PPN
numnodes=$PBS_NUM_NODES

CMD="mpirun  $application $options"

###########################################
cd $PBS_O_WORKDIR
echo -e "Changed directory to `pwd`.n"
JOBID=`echo $PBS_JOBID | sed -e "s/..*$//"`

echo "workdir $PBS_O_WORKDIR , jobid: $PBS_JOBID , ":

echo -e "JobID: $JOBIDn======"
echo "Time: `date`"
echo "Running on master node: `hostname`"
echo "Current directory: `pwd`"

if [ -r "$PBS_NODEFILE" ]; then
        cat $PBS_NODEFILE | uniq > machfile
        echo -e "nNodes allocated:n================"
        echo `cat machfile`
fi

echo -e "nnumprocs=$np, numnodes=$numnodes, ppn=$ppn"
echo -e "nExecuting command:n==================n$CMDn"
echo "$CMD"

eval $CMD

Kontrola úloh 

$ qstat -a, showq
$ showq -b

Vymazanie úlohy z fronty 

$ qdel  jobid

Obsah