Icg hpc-user

Portsmouth ICG – HPC The “ Sciama ” Environment G Burton - Nov 10 - Version 1.1

SCIAMA (pronounced shama) S EPNet C omputing I nfrastructure for A strophysical M odeling and A nalysis

What we need from SEPNet partners:- Named “superuser” Required for initial testing Required for initial user training Will require local IP range for firewall access Required software packages to be installed Approximation of number of likely users

Sciama Building Blocks

In the “good-ol-days” things were simple ……….

… then more sockets were added Two main players are Intel and AMD Single operating system controlling both sockets

… then more cores to the sockets. The basic building block for the Sciama cluster Intel Xeon X5650 2.66Ghz six-core (Westmere core)

Total ICG Compute Pool > 1000 Cores

Sciama Basic Concept

Basic Concept of Cluster

A bit about Storage ……… NB. The storage is transient - IT WILL NOT BE BACKED UP

Lustre Storage – V Large Files – High Performance

Networking -Three Independent LAN’S

Some users are at remote locations ..

Use of Remote Login Client

ICG-HPC Stack

Installed S/W Licensed Software:- Intel Cluster Toolkit (compiler edition for Linux) Intel Thread Checker Intel Vtune Performance Analyser IDL use ICG license pool ? Restrict access ?) Matlab use UoP floating licenses ? Restrict access ? )

Installed S/W Will install similar to Cosmos / Universe :- OpenMPI, OpenMP, MPICH Opens source C, C++ and Fortran compiler suites Maths Libs – ATLAS, BLAS, (Sca)LAPACK, FFTW

Running Applications on the Sciama

12 cores per Nodes Multiple cores allow for multi treaded applications. OpenMP is an enabler

Inter node memory sharing not (usually ) possible Gives rise to “distributed memory” Model Need the likes of OpenMPI (Message Passing Interface)

Largest (sensible) job is 24Gbytes in this distributed memory model

MPI allows parallel programming in distributed memory model MPI enables parallel computation Message Buffers are used to pass data between processes Standard tcp-ip network used

Hybrid OpenMP and MP programming possible

Comparing Sciama with Cambridge COMOS / Universe Environments

Shared Memory Model Sciama is a distributed memory systems. Cosmos – Universe environments are SGI Altix shared memory systems.

Shared Memory Models Can Support very large processes

Shared Memory Model Supports OpenMP and MPI (and Hybrid) Altix systems have an MPI Offload Engine for speeding up MPI comms.

Binary Compatibility COSMOS and Universe are not binary compatible (Intel vs Itanium processors). Universe is compatible with Sciama but some libraries may be SGI Specific (MPI offload engine)

Icg hpc-user

by gdburton

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