The Technical University of Denmark and the Danish Graduate School in Biostatistics
High Performance Computing in Biostatistics
Title: High Performance Computing in Biostatistics
Purpose and content: With the advent of 64-bit microprocessors, systems providing very large
memories are becoming mainstream. In combination with the increased availability of multi-core processors, users have access to tremendous compute power. From a programmer point of view though, it is now becoming more easy to take advantage of these powerful compute resources.
This 5 days PhD course will cover several topics in the field of high performance computing (HPC) in Biostatistics. The following topics will be covered:
- Computer architectures in HPC
- Introduction into parallelization
- Introduction to the DTU Sun SMP cluster
- The R system for statistical computation and graphics
- Parallel computing with the R system
- The memory hierarchy in cache based systems
- The Sun Studio components: Fortran and C compilers, the Performance
Library and the Performance Analyzer
- Shared memory parallelization: Automatic and Explicit with OpenMP
Participants: PhD students and researchers within biostatistics
Form: Throughout the course there will be tutorials on the different topics as well as lab time to experiment with the information and techniques covered in the tutorials.
Some of the seminars will focus on Sun's UltraSPARC III and IV processors, but also provide information that is generally applicable. Attendees should be comfortable with C or Fortran programming and interested in learning more about the technical details of application tuning. Although there is no special coverage of C++ and the examples are in C and/or Fortran, C++ programmers will certainly benefit from this course as well. The users will get access to large SMP computers (up to 72 CPUs and more than 400GB of memory) during the course and also in the following years, within the framework of the Danish Graduate School in Biostatistics.
Language: English
Teachers: Ruud van der Pas, Sun Corporate HPTC team, Peter Dalgaard, Dept. of Biostatistics, University of Copenhagen, Bernd Dammann, HPC Center at DTU
Course director: Professor Henrik Madsen, IMM, DTU
Time: September 27 - October 1, 2004. All days 8.45-16.30.
Place: Technical University of Denmark, Informatics and mathematical modelling, building 321, room 053
Course fee: PhD students free, others 1.000 DKK
Registration: Deadline September 20, 2004
Further information and registration: Janne Kofoed Lassen, jkl@imm.dtu.dk, phone +45 45 25 33 51
