Hybrid job example

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Revision as of 22:09, 12 October 2011 (view source) Ngrkic (Talk | contribs) ← Older edit		Latest revision as of 07:15, 13 October 2011 (view source) Ngrkic (Talk | contribs)
Line 57:		Line 57:
	cat <jobID>.ce64.ipb.ac.rs.out		cat <jobID>.ce64.ipb.ac.rs.out
-
-	n06.ipb.ac.rs
-	n06.ipb.ac.rs
-	n08.ipb.ac.rs
-	n08.ipb.ac.rs
-	n13.ipb.ac.rs
-	n13.ipb.ac.rs
-
-	Node: 2
-	Node integral: 0.523599
-
-	Node: 1
-	Node integral: 0.523599
-
-	Node: 3
-	Node integral: 0.523599
-
-	Node: 4
-	Node integral: 0.523599
-
-	Node: 5
-	Node integral: 0.523599
-	Compiled on Oct 12 2011 at 11:34:11
-	Number of nodes: 6
-	Number of intervals: 300000000
-
-	Node: 0
-	Node integral: 0.523599
-	PI exact  :      3.1415926535897931
-	PI estimate:      3.1415926535899650
-	PI diff    :      0.0000000000001719
-	Wall clock: 1.894531

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Latest revision as of 07:15, 13 October 2011

In this exercise user should obtain prepared hybrid job, extract archive, list content of files, submit job on PARADOX cluster, monitor his progress with information from queue and when job is done list resaults file.

1. Login on ui.ipb.ac.rs:

$ ssh ngrkic@ui.ipb.ac.rs

2. Navigate to your folder in nfs filesystem.

$ cd /nfs/ngrkic

3. Download tgz archive with example files.

wget http://wiki.ipb.ac.rs/images/b/bb/Hybrid.tgz

4. Extract archive :

$ tar xvzf Hybrid.tgz

5. Enter Mpich folder

$ cd Hybrid

6. List content of folder:

$ ll

7. List content of job.pbs and files:

$ cat job.pbs

#!/bin/bash
#PBS -q hpsee
#PBS -l nodes=4:ppn=8
#PBS -l walltime=10:00:00
#PBS -e ${PBS_JOBID}.err
#PBS -o ${PBS_JOBID}.out
export OMP_NUM_THREADS=8

cd $PBS_O_WORKDIR
chmod +x job

${MPI_OPENMPI_MPIEXEC} -np 4 -npernode 1 ./job

8. Submit job :

qsub job.pbs

qsub will print output :

<jobID>.ce64.ipb.ac.rs

9. Monitor your job :

qstat <jobID>.ce64.ipb.ac.rs

10.When job is done list content of <jobID>.ce64.ipb.ac.rs.out file :

cat <jobID>.ce64.ipb.ac.rs.out