Java HPC Course: Aberdeen Test Center, September 24-26, 2003

Lecture Materials

• Java Background

  • Java for HPC Introduction
  • Introduction to Java New I/O

• Core Topics

  • Multithreaded and Shared-Memory Programming in Java
  • Java RMI and RMI-Based Approaches for HPC
  • MPI-Based Approaches for Java

• Further reading...

  • Web services and grids
  • ... and portlets/portals
  • ... more ...
  • Semantic Web/Metadata

Software

• For practical sessions

  • JOMP, an "OpenMP" for Java.
  • JavaParty project home page, "A Distributed Companion to Java".
  • The HPJava/mpiJava home page.
  • The MPICH home page.

• Other interesting stuff...

  • Java Grande Benchmark Suite, EPCC.
  • Manta project home page, "A Fast Parallel Java".
  • JMPI, a Java implementation of the MPJ spec.
  • CartaBlanca, a Java tool for simulating non-linear physics on unstructured grids.
  • Titanium, an explicitly parallel dialect of Java.
  • The Java Virtual Wind Tunnel

Selected Technical Papers

• Benchmarks and Applications

  • Benchmarking Java against C and Fortran for Scientific Applications, J. M. Bull, L. A. Smith, L. Pottage and R. Freeman, Java Grande/ISCOPE 2001.
  • Implementation of the NAS Parallel Benchmarks in Java, Michael A. Frumkin, Matthew Schultz, Haoqiang Jin, and Jerry Yan, NAS Technical Report NAS-02-009.
  • Using Java for Plasma PIC Simulations (PowerPoint presentation), Quanming Lu and Vladmir Getov, IPDPS 2003.
  • Java Performance for Scientific Applications on LLNL Computer Systems, Craig Kapfer, Andrew Wissink, 2002. LLNL technical report UCRL-ID-148317.
  • Parallel Operation of CartaBlanca Environment on Shared and Distributed Memory Computers, N.T. Padial-Collins, W.B. VanderHeyden, D. Zhang, E.D. Dendy, D. Livescu, Concurrency and Computation: Practice and Experience, to appear.
  • CartaBlanca--A Pure Java, Component-based Systems Simulation Tool for Non-linear Physics on Unstructured Grids--An Update" W. B. VanderHeyden, E. D. Dendy and N. T. Padial-Collins ACM 2001 Java Grande/ISCOPE conference.
  • Parsek: Object Oriented Particle in Cell. Implementation and Performance Issues, S. Markidis, G. Lapenta, W.B. VanderHeyden, Java Grande/ISCOPE 2002.
  • A Pure Java Parallel Flow Solver, Jochem Huser, Thorsten Ludewig, Torsten Gollnick, Ralf Winkelmann, Roy Williams, Jean Muylaert, and Martin Spel Proceedings of 37th Aerospace Sciences Meeting (1999).
  • High Performance Java Codes for Computational Fluid Dynamics, Christopher Riley, Siddharta Chatterjee and Rupak Biswas, ACM 2001 Java Grande/ISCOPE conference.
  • Parallel 3D Adaptive Mesh Refinement in Titanium, Geoff Pike, Luigi Semenzato, Phillip Colella, and Paul N. Hilfinger, Titanium home page.
  • A Finite Difference Domain Decomposition Method Using Local Corrections for the Solution of Poisson's Equation, Gregory T. Balls and Phillip Colella, Titanium home page.

• Shared Memory Approaches

  • JOMP--an OpenMP-like Interface for Java, J. M. Bull and S.D. Telford, Java Grande 2000.
  • OpenMP C and C++ Application Program Interface, Version 1.0, October 1998. (from www.openmp.org).
  • Transparently Obtaining Scalability for Java Applications on a Cluster, Y. Aridor, M. Factor, A. Teperman, T. Eilam, and A. Schuster, Parallel and Distributed Computing special issue: Java on Clusters, 2000

• RMI-based Approaches

  • JavaParty - transparent remote objects in Java, Michael Philippsen and Matthias Zenger. In Concurrency: Practice and Experience 9(11):1225-1242, 1997
  • More Efficient Serialization and RMI for Java, Michael Phillipsen, Bernard Haumacher, and Christian Nester, ACM 1999 Java Grande Conference
  • Efficient Java RMI for Parallel Programming, Jason Maassen, Rob van Nieuwpoort, Ronald Veldema, Henri Bal, Thilo Kielmann, Ceriel Jacobs, Rutger Hofman, 2000.

• Message-Passing Approaches

  • MPJava: High-Performance Message Passing in Java using Java.nio, William Pugh and Jaime Spacco, LCPC 2003.
  • Performance Analysis of Java Message-Passing Libraries on Fast Ethernet, Myrinet and SCI-based clusters, Guillermo L. Taboada, Juan Tourino and Ramon Doallo
  • CCJ: Object-based Message Passing and Collective Communication in Java, Arnold Nelisse, Jason Maassen, Henri Bal, Thilo Kielmann, Concurrency Practice and Experience, (ACM Java Grande/ISCOPE 2001 conference).
  • JMPI: Implementing the Message Passing Standard in Java S. Morin, I. Koren, and C.M. Krishna, IPDPS 2002 Workshop.

• General

  • Java and Numerical Computing, R. Boisvert, J. Moreira, M. Phillipsen, and R. Pozo, IEEE Computing in Science and Engineering, Mar-Apr, 2001.
  • A Comparative Study of Parallel and Distributed Java Projects for Heterogeneous Systems, Jameela Al-Jaroodi, Nader Mohamed, Hong Jiang, and David Swanson, IPDPS Workshop on Java for Parallel and Distributed Computing, 2002.
  • A Comparison of Three Approaches to Language, Compiler, and Library Support for Multidimensional Arrays in Java Jos\303\251 Moreira, Sam Midkiff, Manish Gupta ACM JavaGrande-ISCOPE 2001