CENG 505 Parallel Computing I
Fall 2011

Most recent announcement: Dec12

Announcements

Watch this space for the latest updates (If the characters do not show properly, please try viewing this page with Unicode (UTF-8) encoding). Last updated:

December 12, 2011 00:29 Project topics:

• Murat Pojon - Supercomputers / LAB. PROJECT TOPIC??

• Mustafa Özçetin - Parallel Programming in the .NET Framework / LAB. PROJECT TOPIC?? PLINQ?

December 5, 2011 17:12 It is time to define your term and lab projects. Please visit the previous years' projects for possible titles or you pick one by yourself and submit to my approval. The project presentations will be on Jan 03, 2012 18.00 PM at PC-Lab. We have a password protection mechanism (username: cankaya password: cankaya).

November 10, 2011 23:38 There will be no midterm exam at next week. But, we will have a lecture at Nov 15, Tuesday 18.00 PM for missing lecture of Nov 01 (I was not available, sorry for that).

October 12, 2011 17:21 Homework: Week2's laboratory exercise study (section 1.8.4 ) should be returned to me on paper. It is due to October 18, 2011.

October 5, 2011 12:52 Homework: Week1's laboratory study should be returned to me on paper. It is due to October 11, 2011.

September 27, 2011 13:23 In the first lecture, there will be first meeting and introductory studies. The lecture notes for the second week will be published soon, see Course Schedule section. All the example c-files (for lecturing and hands-on sessions) will be accessible via the link.

Overview

This course provides an introduction to parallel and distributed computing and practical experiences in writing parallel programs on a cluster of computers. You will learn about the following topics:

• Parallel Computers

• Message Passing Computing

• Embarrassingly Parallel Computations

• Partitioning and Divide-and-Conquer Strategies

• Pipelined Computations

• Synchronous Computations

• Load Balancing

• Programming with Shared Memory

Topics might be classified into two main parts as;

• Parallel computers: architectural types, shared memory, message passing, interconnection networks, potential for increased speed.

• Basic techniques: embarrassingly parallel computations, partitioning and divide and conquer, pipelined computations, synchronous computations, load balancing, shared memory programming.

Lecture Information

There is one group for lecturing. You will be expected to do significant programming assignments, as well as run programs we supply and analyze the output. Since we will program in C on a UNIX environment, some experience using C on UNIX will be important. We will provide tutorials for basic C on UNIX during the first few class periods.

In lab sessions, we will concentrate upon the message-passing method of parallel computing and use the standard parallel computing environment called MPI (Message Passing Interface). Thread-based programming will also be outlined, and the distributed shared memory (DSM) approach (If we have enough time). Each student will complete a project based on parallel computing for the laboratory study.

Also, each student will complete a project based on parallel computing, (distributed computing, cluster computing) for the midterm exam.

Important announcements will be posted to the Announcements section of this web page above, so please check this page frequently. You are responsible for all such announcements, as well as announcements made in lecture.

Course Outline

• Contents

• List of Tables

• List of Figures

• First Meeting

  • Lecture Information

  • Overview

  • Text Book

  • Grading Criteria & Policies

  • Parallel Computing

  • MPI Hands-On; Performance Analysis

    • Analysis of Parallel Summation with Point-to-Point Communications

• Introduction

  • Four Decades of Computing

  • Flynn's Taxonomy of Computer Architecture

  • Parallel and Distributed Computers

  • SIMD Architecture

  • MIMD Architecture

  • Shared Memory Organization

  • Message Passing Organization

  • MPI Hands-On - Introduction to MPI

    • Parallel Computing

    • Communicating with other processes

    • What is MPI?

    • MPI Implementations

    • Is MPI Large or Small?

    • Where to use MPI?

    • How To Use MPI? Essential!!

    • Getting started

      • Writing MPI programs I

      • Writing MPI programs II

      • Writing MPI programs III

      • Exercise - Getting Started

• Performance Analysis

  • Computational Models

    • Equal Duration Model

    • Parallel Computation with Serial Sections Model

  • Skeptic Postulates For Parallel Architectures

    • Grosch's Law

    • Amdahl's Law

    • Gustafson-Barsis's Law

  • MPI Hands-On - Sending and Receiving Messages I

    • Current Message-Passing

    • The Buffer

    • MPI Basic Send/Receive

    • Exercises/Examples

• Programming Using the Message-Passing Paradigm

  • Principles of Message-Passing Programming

  • Structure of Message-Passing Programs

  • The Building Blocks: Send and Receive Operations

    • Blocking Message Passing Operations

    • Non-Blocking Message Passing Operations

  • MPI Hands-On; Sending and Receiving Messages II

• MPI: the Message Passing Interface

  • Starting and Terminating the MPI Library

  • Communicators

  • Getting Information

  • Sending and Receiving Messages

  • Avoiding Deadlocks

  • Sending and Receiving Messages Simultaneously

  • MPI Hands-On; Sending and Receiving Messages III

    • HOMEWORK - Due to November 5, 2010

  • Overlapping Communication with Computation

    • Non-Blocking Communication Operations

  • Collective Communication and Computation Operations

    • Broadcast

    • Reduction

    • Gather

    • Scatter

    • All-to-All

  • Groups and Communicators

  • MPI Hands-On; Collective Communications I

• Programming Shared Memory

  • What is a Thread?

  • Threads Model

  • Why Threads?

  • Thread Basics: Creation and Termination

    • Thread Creation

    • Thread Termination

  • MPI Hands-On; Collective Communications II

    • HOMEWORK - Due to December 13, 2010

  • Thread Basics: Passing Arguments, Cancellation and Joining

    • Passing Arguments to Threads

    • Thread Cancellation

    • Joining and Detaching Threads

  • Synchronization Primitives in Pthreads

    • Mutual Exclusion for Shared Variables

  • Hands-on; Shared Memory I; Threads

  • Thread Examples

    • Computing the value of

    • Producer-consumer work queues

  • Condition Variables for Synchronization

  • Hands-on; Shared Memory II; Synchronization Primitives

  • Controlling Thread Attributes and Synchronization

    • Attributes Objects for Threads

  • Composite Synchronization Constructs

  • Tips for Designing Asynchronous Programs

  • OpenMP: a Standard for Directive Based Parallel Programming

    • The OpenMP Programming Model

  • Hands-on; Shared Memory III; MPI with Pthread, OpenMP

    • HOMEWORK - Due to December 27, 2010

• Network Computing

  • Computer Networks Basics

    • Network Performance

    • Other Network Technologies

  • Client/Server Systems

    • Sockets

    • A Client Server Framework for Parallel Applications

  • Clusters

    • Cluster Examples

  • Hands-on; Miscellaneous I

  • Interconnection Networks

    • Ethernet

    • Switches

    • Myrinet Clos Network

    • The Quadrics Network

  • Grid Computing

  • Hands-on; Miscellaneous II

    • HOMEWORK - Due to January 10, 2011

• References:

• vita

• About this document ...

Text Book

Required

Recommended

• Principles of Parallel Programming, by C. Lin and L. Snyder, Addison-Wesley 2009, ISBN 0-32-148790-7.

• Parallel Programming: Techniques and Application Using Networked Workstations and Parallel Computers, 2^nd edition, by B. Wilkinson and M. Allen, Prentice Hall Inc., 2005, ISBN 0-13-140563-2.

• Beowulf Cluster Computing with Linux, 2nd edition, edited by William Gropp, Ewing Lusk, Thomas Sterling, MIT Press, 2003, ISBN 0-262-69292-9.

• Beowulf Cluster Computing with Windows, Thomas Sterling , MIT Press, 2001, ISBN 0-262-69275-9.

• Using MPI , Portable Parallel Programming with the Message Passing Interface, William Gropp, Ewing Lusk and Anthony Skjellum, The MIT Press, 1999, ISBN 0-262-57132-3.

• Using MPI-2, Advanced Features of the Message Passing Interface, William Gropp, Ewing Lusk, Rajeev Thakur, The MIT Press, 1999, ISBN 0-262-57133-1.

• MPI: The Complete Reference (Vol. 1) - The MPI Core, Marc Snir, Steve Otto, Steven Huss-Lederman, David Walker and Jack Dongarra, The MIT Press, 1998, ISBN 0-262-69215-5.

• MPI: The Complete Reference (Vol. 2) - The MPI-2 Extensions, William Gropp, Steven Huss-Lederman, Andrew Lumsdaine, Ewing Lusk, Bill Nitzberg, William Saphir and Marc Snir, The MIT Press, 1998, ISBN 0-262-57123-4.

• In Search of Clusters: The ongoing battle in lowly parallel computing, Second Edition, by Gregory F. Pfister, Prentice Hall Publishing Company, 1998, ISBN: 0-13-899709-8.

• How to Build a Beowulf – A Guide to the Implementation and Application of PC Clusters, by Thomas Sterling, John Salmon, Donald J. Becker and Daniel F. Savarese, MIT Press, 1999, ISBN 0-262-69218-X.

• PVM: Parallel Virtual Machine, A Users' Guide and Tutorial for Network Parallel Computing, Al Geist, Adam Beguelin, Jack Dongarra, Weicheng Jiang, Robert Manchek and Vaidyalingam S. Sunderam, MIT Press, 1994, ISBN 0-262-57108-0.

This texts are only recommended rather than required. This books are useful for reference, for an alternative point of view.

Online References

Some materials are given. Please inform me about the usefullness of the materials. Check this place for updates.

The following references are available online

• Take a look at the TOP500 list

• MPI: The Complete Reference

• Message Passing Interface Forum

• MPICH Home Page

• MPI Man pages (Web format)

• ANSI C for Programmers on UNIX Systems

• Greg Wilson's Parallel Computing Timeline (1955 to 1993)

• I. Foster. Designing and Building Parallel Programs, Addison-Wesley, 1995 available on-line

Grading Criteria

• There will be a final exam: 40%

• Term Project as Midterm exam: 25%

• Term Project as Lab. exam: 25%

• Attendance is REQUIRED and constitutes part of your course grade; 10%.

Policies

• Attendance is COMPULSORY, and you are responsible for everything said in class.

• I encourage you to ask questions in class. You are supposed to ask questions. Don't guess, ask a question!

• You may discuss homework problems with classmates (although it is not to your advantage to do so).

• You can use ideas from the literature (with proper citation).

• You can use anything from the textbook/notes.

• The code you submit must be written completely by you.

Course Schedule

The following schedule is tentative; it may be updated later in the semester, so check back here frequently.