Cluster

IIHE local cluster

Overview

The cluster is composed by 4 machine types :

• User Interfaces (UI)
  

This is the cluster front-end, to use the cluster, you need to log into those machines

Servers : ui01, ui02

• Computing Element (CE)
  

This server is the core of the batch system : it run submitted jobs on worker nodes

Servers : ce

• Worker Nodes (WN)
  

This is the power of the cluster : they run jobs and send the status back to the CE

Servers : slave*

• Storage Elements
  

This is the memory of the cluster : they contains data, software, ...

Servers : datang (/data, /software), lxserv (/user), x4500 (/ice3)

How to connect

To connect to the cluster, you must use your IIHE credentials (same as for wifi)

ssh username@icecube.iihe.ac.be

TIP : icecube.iihe.ac.be points automatically to available UI's (ui01, ui02, ...)

After a successful login, you'll see this message :

==========================================
Welcome on the IIHE ULB-VUB cluster

Cluster status http://ganglia.iihe.ac.be
IT Help support-iihe@ulb.ac.be
==========================================

username@uiXX:~$

Your default current working directory is your home folder.

Directory Structure

Here is a description of most useful directories

/user/username

Your home folder

/data

Main data repository

/software

The custom software area

/software/icecube

Icecube specific tools :

/software/icecube/i3_ports

This folder contains the I3 ports used by icecube (meta-)projects

In order to use it, you must define the environment variable $I3_PORTS

export I3_PORTS="/software/icecube/i3_ports"

This variable is set only for the current session, in order to not define it everytime,  you can add this command to your .bashrc

/software/icecube/icerec

This folder contains the icerec meta-project

To use it, just run the following command (note the point at the beginning of the line)

. /software/icecube/icerec/VXX-XX-XX/env-shell.sh

Available versions :

• V04-05-00
• V04-05-00-jkunnen
  

Batch System

Queues

The cluster is decomposed in queues

	any	lowmem	standard	highmem	gpu
Description
CPU's
Walltime default/limit
Memory default/limit

Job submission

To submit a job, you just have to use the qsub command :

qsub myjob.sh

OPTIONS

-q queueName : choose the queue (default: any)

-N jobName : name of the job

-I : pass in interactive mode

-m : mail options

-l : resources options

Job management

To see all jobs (running / queued), you can use the qstat command or go to the JobMonArch page

qstat

OPTIONS

-u username : list only jobs submitted by username

-n : show nodes where jobs are running

-q : show the job repartition on queues

Useful links

Ganglia Monitoring : Servers status

JobMonArch : Jobs overview