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Description 
The availability of high-speed networks and increasingly powerful commodity microprocessors are making the usage of clusters, or networks, of computers an appealing vehicle for cost effective parallel computing. Clusters, built using commodity-of-the-shelf COTS) hardware components as well as free, or commonly used, software, are playing a major role in redefining the concept of high performance computing.\nThe School aims to provide the skills needed to benefit from this generation of HPC solutions, giving a basic knowledge of programming, administering and tuning, as well purchasing or building Linux-based clusters.\n\nAs a provisional program there will be lectures on :

Interconnections solutions(characteristics and performances)
Parallel programming techniques
Optimization and profiling techniques for clusters
Operating system issues: parallel file systems and IO\n System Administration of a Linux cluster
These lectures will be complemented by hands-on lab sessions where participants, grouped in small teams, will build their own cluster from scratch; during the first week of the school these clusters will be assembled, configured and tested.
In the second part of the course, some representative parallel codes in the areas of computational condensed matter, engineering and weather forecast will be distributed to the participants. These codes will be presented in a series of tutorials illustrating their usage and the parallelisation strategies they adopt. During Lab sessions, the participiants will be asked to install, analyse and profile some of these codes on the previously built clusters

Material

JOINT ICTP-INFM SCHOOL IN "HIGH PERFORMANCE COMPUTING ON LINUX CLUSTERS" | (smr 1395)
Go to day
  • Thursday, 31 January 2002
    • 09:00 - 11:00 REGISTRATION and administrative formalities
      Location: Adriatico Guest House (Lower Level 1)
      • 09:00 REGISTRATION and administrative formalities 2h0'
    • 11:00 - 12:00 Introduction 
      A brief presentation of school and an overview of HPC and the impact of linux cluster approach
    • 12:00 - 13:00 The Linux O.S. : an overview 
      An overview of the Linux .O.S. will be presented.
Pros and Cons of this OS with respect to other operating systems will be adressed and discusses
      • 12:00 The Linux O.S. : an overview 1h0'
        Speaker: C. Fonda (ICTP)
        Material: lecture notes
    • 13:00 - 15:00 Lunch
      Location: Main Building Cafeteria
      • 13:00 Lunch 2h0'
    • 15:00 - 15:15 Lab Session: presentation 
      Introduction: how to use the lab sessions
      Location: Adriatico Guest House Informatics Lab.
      • 15:00 Lab Session: presentation 15'
        Speaker: S. Cozzini
        Material: lecture notes
    • 15:15 - 16:15 Again on O.S. Linux System 
      II part:
      Location: Adriatico Guest House Informatics Lab.
      • 15:15 Again on O.S. Linux System 1h0'
        Speaker: C. Fonda
        Material: lecture notes
    • 16:15 - 18:15 Practical: Install your own linux box 
      Every student is supposed to install a Linux Box.
      Location: Adriatico Guest House Informatics Lab.
      • 16:15 Practical: Install your own linux box 2h0'
        Speaker: C. Fonda
        Material: lecture notes
  • Friday, 1 February 2002
    • 09:00 - 10:50 Cluster Hardware: PC and networks 
      The basic hardware to build a linux cluster
      Location:
      • 09:00 Cluster Hardware: PC and networks 1h50'
        Speaker: R. Innocente (SISSA)
        Material: lecture notes
    • 10:50 - 11:10 Coffee Break
      Location: Adriatico Guest House (Lower Level 1)
      • 10:50 Coffee Break 20'
    • 11:10 - 13:00 Introduction to the Lab Network 
      An introduction to linux networking and to the network organization of our lab.
      Location:
      • 11:10 Introduction to the Lab Network 1h50'
        Speaker: C. Fonda
        Material: lecture notes
    • 13:00 - 14:30 Lunch
      Location: Main Building Cafeteria
      • 13:00 Lunch 1h30'
    • 14:30 - 17:30 Tutorial: Oscar for linux cluster 
      OSCAR is a fully integrated easy to install bundle of software designed to make it easy to build and use a cluster for high performance computing. Everything you need to build, maintain, and use a modest sized Linux cluster is included in OSCAR. 

We invite students to read and study the oscar installation guide 
( see more information link)
      Location:
    • 17:30 - 18:00 Forming of Groups 
      Working Groups are formed. Short presentation among members of the group.
      Location: Adriatico Guest House Informatics Lab.
      • 17:30 Forming of Groups 30'
    • 18:30 - 20:00 Reception
      Location: Adriatico Guest House (Lower Level 1)
      • 18:30 Reception 1h30'
  • Saturday, 2 February 2002
    • 09:00 - 11:10 Practical: Install Oscar
      Location: Adriatico Guest House Informatics Lab.
      • 09:00 Practical: Install Oscar 2h10'
        Speaker: J. Enos
    • 11:10 - 11:30 Coffee Break
      Location: Adriatico Guest House (Lower Level 1)
      • 11:10 Coffee Break 20'
    • 11:30 - 12:30 Students' Presentation 
      How we build our first linux cluster...
      Location: Adriatico Guest House Informatics Lab.
  • Monday, 4 February 2002
    • 09:00 - 10:50 Parallel Programming in MPI (I)
      Location:
      • 09:00 Parallel Programming in MPI (I) 1h50'
        Speaker: C. Cavazzoni (Cineca)
        Material: lecture notes
    • 10:50 - 11:10 Coffee Break
      Location: Adriatico Guest House (Lower Level 1)
      • 10:50 Coffee Break 20'
    • 11:10 - 13:00 Practical: MPI examples 
      Run your first MPI programs
      Location: Adriatico Guest House Informatics Lab.
      • 11:10 Practical: MPI examples 1h50'
        Speaker: C. Cavazzoni
        Material: related links
    • 13:00 - 14:30 Lunch
      Location:
      • 13:00 Lunch 1h30'
    • 14:30 - 16:20 Parallel Programming in MPI (II)
      Location:
      • 14:30 Parallel Programming in MPI (II) 1h50'
        Speaker: C. Cavazzoni
    • 16:20 - 16:30 Break
      Location:
      • 16:20 Break 10'
    • 16:30 - 18:00 Practical: More MPI examples
      Location: Adriatico Guest House Informatics Lab.
      • 16:30 Practical: More MPI examples 1h30'
        Speaker: C. Cavazzoni
  • Tuesday, 5 February 2002
    • 09:00 - 10:50 Linux Cluster Management (I)
      Location:
      • 09:00 Linux Cluster Management (I) 1h50'
        Speaker: S. Martinelli (Cineca)
        Material: lecture notes
    • 10:50 - 11:10 Coffee Break
      Location: Adriatico Guest House (Lower Level 1)
      • 10:50 Coffee Break 20'
    • 11:10 - 13:00 Tools for HPC
      Location:
    • 13:00 - 14:30 Lunch
      Location:
      • 13:00 Lunch 1h30'
    • 14:30 - 15:30 MPI programming (III)
      Location:
      • 14:30 MPI programming (III) 1h0'
        Speaker: C. Cavazzoni
    • 15:30 - 17:00 Practical: exercises on MPI programming
      Location: Adriatico Guest House Informatics Lab.
      • 15:30 Practical: exercises on MPI programming 1h30'
        Speaker: C. Cavazzoni
        Material: misc
    • 17:00 - 18:00 Practical: Install free math libraries and the Intel Fortran compiler
      Location: Adriatico Guest House Informatics Lab.
      • 17:00 Practical: Install free math libraries and the Intel Fortran compiler 1h0'
        Speaker: S. Cozzini
        Material: lecture notes
  • Wednesday, 6 February 2002
    • 09:00 - 10:50 Linux Cluster Management (II)
      Location:
      • 09:00 Linux Cluster Management (II) 1h50'
        Speaker: S. Martinelli
        Material: lecture notes
    • 10:50 - 11:10 Coffee Break
      Location: Adriatico Guest House (Lower Level 1)
      • 10:50 Coffee Break 20'
    • 11:10 - 13:00 Advanced Topic: Mosix cluster approach 
      Mosix Cluster  will be presented and discussed.

Please note: two attached articles are provided ( follow more information link) and students are invited to download and read them carefully before the lectures
      Location:
      • 11:10 Advanced Topic: Mosix cluster approach 1h50'
        Speaker: M. Bar (Mosix's Group)
        Material: lecture notes misc
    • 13:00 - 14:30 Lunch
      Location:
      • 13:00 Lunch 1h30'
    • 14:30 - 15:30 A demo on Mosix
      Location:
      • 14:30 A demo on Mosix 1h0'
        Speaker: Moshe Bar
    • 15:30 - 17:00 Practical: configuring PBS and run PBS
      Location: Adriatico Guest House Informatics Lab.
      • 15:30 Practical: configuring PBS and run PBS 1h30'
        Speaker: S. Martinelli
    • 17:00 - 18:45 Practical: Install Mosix Cluster
      Location: Adriatico Guest House Informatics Lab.
      • 17:00 Practical: Install Mosix Cluster 1h45'
        Speaker: S. Cozzini
        Material: lecture notes
  • Thursday, 7 February 2002
    • 09:00 - 10:50 Again on Hardware: High -end Processors and High Speed Network 
      A survey of the high-end  processors available and high speed networks
      Location:
      • 09:00 Again on Hardware: High -end Processors and High Speed Network 1h50'
        Speaker: R. Innocente
        Material: lecture notes
    • 10:50 - 11:10 Coffee Break
      Location: Adriatico Guest House (Lower Level 1)
      • 10:50 Coffee Break 20'
    • 11:10 - 13:00 Profiling and Optimization Techinque (I)
      Location:
      • 11:10 Profiling and Optimization Techinque (I) 1h50'
        Speaker: L. DeRose (ACTC -IBM)
    • 13:00 - 14:30 Lunch
      Location:
      • 13:00 Lunch 1h30'
    • 14:30 - 18:00 Practical: Measure performances of processors/ networks and compare mpich vs LAM
      Location: Adriatico Guest House Informatics Lab.
      • 14:30 Practical: Measure performances of processors/ networks and compare mpich vs LAM 3h30'
        Speaker: M. Corbatto (SISSA)
        Material: lecture notes
  • Friday, 8 February 2002
    • 09:00 - 10:50 Profiling and Optimization Technique (II)
      Location:
      • 09:00 Profiling and Optimization Technique (II) 1h50'
        Speaker: L. DeRose
    • 10:50 - 11:10 Coffee Break
      Location:
      • 10:50 Coffee Break 20'
    • 11:10 - 13:00 Portable MPI Tools at Work - Cracking Performance Problems 
      Abstract
Vampir, the leading MPI performance analysis tools, is now available in a new and improved version. Vampir features a streamlined user-interface, additional displays and source-code display, while keeping all the unique features of previous Vampir releases.
This presentation will cover
- brief introduction to Pallas, a leading european vendor of software tools for parallel computing.
- Vampir, visualization and analysis of MPI programs, focus on 'news'
- Vampirtrace, low overhead MPI profiling library, news on Linux
- TotalView 5, multi-process debugger
      Location:
      • 11:10 Portable MPI Tools at Work - Cracking Performance Problems 1h50'
        Speaker: W. Krotz-Vogel (Pallas)
        Material: lecture notes
    • 13:00 - 14:30 Lunch
      Location:
      • 13:00 Lunch 1h30'
    • 14:30 - 16:30 Practical: Optimize these codes! 
       hands-on session on code optimization
      Location: Adriatico Guest House Informatics Lab.
      • 14:30 Practical: Optimize these codes! 2h0'
        Speaker: L. DeRose
        Material: lecture notes
    • 16:30 - 18:00 Practical: Vampir at work
      Location: Adriatico Guest House Informatics Lab.
      • 16:30 Practical: Vampir at work 1h30'
        Speaker: W. Krotz-Vogel
        Material: lecture notes
  • Saturday, 9 February 2002
    • 09:00 - 11:00 Lab Session 
      A free lab session in order to 

1. Complete/repeat previous day work 
2. Install and run your own code
3. Test different Solution
      Location: Adriatico Guest House Informatics Lab.
      • 09:00 Lab Session 2h0'
    • 11:00 - 11:20 Coffee Break
      Location: Adriatico Guest House (Lower Level 1)
      • 11:00 Coffee Break 20'
    • 11:20 - 12:30 Group Presentation 
      A 10 minutes presentation for each group where results obtained, problem encountered are presented and discussed
      Location: Adriatico Guest House Informatics Lab.
      • 11:20 Group Presentation 1h10'
  • Monday, 11 February 2002
    • 09:00 - 10:50 Advanced Topic: Parallel Filesytems GPFS
      Location:
      • 09:00 Advanced Topic: Parallel Filesytems GPFS 1h50'
        Speaker: Luiz DeRose
    • 10:50 - 11:10 Coffee Break
      Location:
      • 10:50 Coffee Break 20'
    • 11:10 - 12:30 Case study A: Engineering application
      Location:
      • 11:10 Case study A: Engineering application 1h20'
        Speaker: C. Borges (Universidade Federal do Rio de Janeiro)
        Material: lecture notes
    • 12:30 - 14:30 Lunch
      Location:
      • 12:30 Lunch 2h0'
    • 14:30 - 15:30 case A tutorial
      Location: Adriatico Guest House Informatics Lab.
    • 15:30 - 17:00 Case A Practical
      Location: Adriatico Guest House Informatics Lab.
      • 15:30 Case A Practical 1h30'
  • Tuesday, 12 February 2002
    • 09:00 - 10:50 Benchmarking linux clusters 
      VIDEOCONFERENCE
      Location:
      • 09:00 Benchmarking linux clusters 1h50'
        Speaker: M. Guest (Daresbury Lab.)
        Material: lecture notes
    • 10:50 - 11:10 Coffee Break
      Location: Adriatico Guest House (Lower Level 1)
      • 10:50 Coffee Break 20'
    • 11:10 - 12:30 Case study B : Metereological Application 
      The Met Office climate model is a world class model used for the study of climate change.  The model will be briefly described and examples of it's use for the understanding of the climate system will be shown.  Experience and results of using the model on various 64 bit and 32 bit platforms and interconnects will be discussed.
      Location:
      • 11:10 Case study B : Metereological Application 1h20'
        Speaker: A. Heaps (Centre for Global Atmospheric Modelling Reading (UK))
        Material: lecture notes
    • 12:30 - 14:30 Lunch
      Location: Main Building Cafeteria
      • 12:30 Lunch 2h0'
    • 14:30 - 15:30 Case B Tutorial
      Location: Adriatico Guest House Informatics Lab.
    • 15:30 - 17:30 Case B Practical
      Location: Adriatico Guest House Informatics Lab.
      • 15:30 Case B Practical 2h0'
  • Wednesday, 13 February 2002
    • 09:00 - 10:50 Performances of parallel chemistry codes on Linux Cluster 
      VIDEOCONFERENCE
      Location:
      • 09:00 Performances of parallel chemistry codes on Linux Cluster 1h50'
        Speaker: M. Guest
        Material: lecture notes
    • 10:50 - 11:10 Coffee Break
      Location: Adriatico Guest House (Lower Level 1)
      • 10:50 Coffee Break 20'
    • 11:10 - 12:30 Case Study C: Condensed matter application
      Location:
      • 11:10 Case Study C: Condensed matter application 1h20'
        Speaker: S. Cozzini
        Material: lecture notes
    • 12:30 - 14:30 Lunch
      Location: Main Building Cafeteria
      • 12:30 Lunch 2h0'
    • 14:30 - 15:30 Case C tutorial
      Location: Adriatico Guest House Informatics Lab.
    • 15:30 - 17:30 Case C practical
      Location: Adriatico Guest House Informatics Lab.
      • 15:30 Case C practical 2h0'
        Speaker: S. Cozzini
  • Thursday, 14 February 2002
    • 09:00 - 10:00 How to build and run a 128 Processor Cluster
      Location:
      • 09:00 How to build and run a 128 Processor Cluster 1h0'
        Speaker: S. Martinelli
        Material: lecture notes
    • 10:00 - 11:00 How to build a cluster for Monte Carlo Simulation 
      Our experience in building a Beowulf cluster from scratch as a personal parallel computing facility will be presented.
The technical solutions which has been implemented in building a cluster dedicated to quantum Monte Carlo simulations will be discussed.
      Location:
      • 10:00 How to build a cluster for Monte Carlo Simulation 1h0'
        Speaker: D. Galli (Dip. Fisica Milano)
        Material: lecture notes
    • 11:00 - 11:30 Coffee Break
      Location: Adriatico Guest House (Lower Level 1)
      • 11:00 Coffee Break 30'
    • 11:30 - 13:00 Practical: free exercises
      Location: Adriatico Guest House Informatics Lab.
      • 11:30 Practical: free exercises 1h30'
    • 13:00 - 15:00 Lunch
      Location: Main Building Cafeteria
      • 13:00 Lunch 2h0'
    • 14:30 - 15:30 The Enea Experience using Beowulf cluster
      Location:
      • 14:30 The Enea Experience using Beowulf cluster 1h0'
        Speaker: M.Celino
        Material: lecture notes
    • 15:30 - 15:50 Student Presentation: "Diskless Linux clusters" 
      Diskless Linux clusters".
   The technical peculiarities of a cluster consisting of diskless Linux nodes are presented. Alternative choices for the installation of such a cluster are compared. A solution based on the GRUB bootloader, Devfs  and Linux support for "root over NFS" is discussed in detail.
      • 15:30 Student Presentation: "Diskless Linux clusters" 20'
        Speaker: Ciro Cattuto (INFM- Perugia)
        Material: lecture notes
    • 15:50 - 16:10 Student presentation: "Some Improvements on Monte Carlo Calculations in QFT".
      Location:
      • 15:50 Student presentation: "Some Improvements on Monte Carlo Calculations in QFT". 20'
        Speaker: Antun Balaz
        Material: lecture notes
    • 16:30 - 18:30 Final Group Presentations 
      Each Group will present results/comments  on the three different test cases and all the activities of the school. 
10 minutes each group.
Slides and/or electronic presentation strongly encouraged
      Location:
      • 16:30 Final Group Presentations 2h0'
    • 19:00 - 21:00 Final Round Table 
      An informal round table with a buffet
      Location:
      • 19:00 Final Round Table 2h0'
  • Friday, 15 February 2002
    • 09:00 - 09:20 Students' presentations:Parallel gravity simulation
      Location:
      • 09:00 Students' presentations:Parallel gravity simulation 20'
        Speaker: Bagla Jasjeet Singh
        Material: lecture notes
    • 09:20 - 09:40 Student Presentation: "Parallel Genetic Algorithm: A typical MPI Application" 
      MPI is used to develop a parallel genetic algorithm program to solve the TSP problem, a typical optimization problem. The decisions made in designing the algorithm and developing and optimizing the code are highlighted, so as to illustrate the process of building a parallel program.
      Location:
      • 09:20 Student Presentation: "Parallel Genetic Algorithm: A typical MPI Application" 20'
        Speaker: Alkarouri Muhammad Abdulmuneim
        Material: lecture notes
    • 09:40 - 10:00 Student Presentation: to be announced
      Location:
      • 09:40 Student Presentation: to be announced 20'
        Speaker: D. Soroka
    • 10:00 - 11:00 Future Trends: Java for HPC
      Location:
    • 11:00 - 11:30 Coffee Break
      Location: Adriatico Guest House (Lower Level 1)
      • 11:00 Coffee Break 30'
    • 11:30 - 12:30 Future Trends: GRID COMPUTING
      Location:
      • 11:30 Future Trends: GRID COMPUTING 1h0'
        Speaker: Francesco GIACOMINI (CNAF-INFN)
        Material: lecture notes
    • 12:30 - 12:45 Conclusions
      Location:
      • 12:30 Conclusions 15'
        Speaker: S.Cozzini, A. Nobile (ICTP)
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