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Computational Physics

Computational Physics. Dr. Guy Tel- Zur. Version 09-12-2010.12:40. Agenda. Administration MHJ Chapter 10: MC methods in Statistical Physics More on VisIt : The Silo file format A demo program Creating a movie More HPC stuff DLA

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Computational Physics

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  1. Computational Physics Dr. Guy Tel-Zur Version 09-12-2010.12:40

  2. Agenda • Administration • MHJ Chapter 10: MC methods in Statistical Physics • More on VisIt: • The Silo file format • A demo program • Creating a movie • More HPC stuff • DLA • Demo: AWS – HPC Instance for Parallel Computing and Cellular Automata / NKS demo on the cloud • Home assignment #3

  3. Final Projects • Please hurry to choose a topic

  4. Visualization: The Silo file format • References: • Download: https://wci.llnl.gov/codes/silo/release_notes.html (BSD License) • http://www.e-science.le.ac.uk/format/silo.shtml • http://www.e-science.le.ac.uk/format/silocode.shtml

  5. Visualization: A demo program • Use VirtualBox Ubuntu  Install Silo and VisIt • Installation was not smooth on Ubuntu 10.4, I had to install libstdc++5 manually (an older version) • Let’s look at “wave.c” • Open DevC++ with: C:\Users\telzur\Documents\My Talks\MIL_OSS\silo\silo-4.8-bsd\tests\wave.c

  6. Silo • Discuss in class the wave.c program • Run the program on the Virtual Machine • Make plot using VisIt • Make a mpeg movie!

  7. wave.c silo file

  8. Mini Course: Performance Tuning • Intel Parallel Studio (commercial) • Vampir (commercial, only a free viewer) • TAU – Paraprof (free) • Scalasca (free) • Marmot (free, not in this course, perhaps in CP2012A ?)

  9. TAU –pprof, paraprof cd to: workshop-point/ring

  10. HPC – Performance Optimization Cycle Source: Scalasca user guide

  11. Scalasca Step1: scalasca –instrument mpicc –o jacobi ./main.c ./jacobi.c Step 2: scalasca –analyze mpirun –np 4 ./jacobi Step 3: scalasca –examine epick_<title> Users guide: http://www.fz-juelich.de/jsc/datapool/scalasca/UserGuide.pdf BTW: Virtual Box file sharing: as root: mount –t vboxsfguytmp ./guytmp

  12. HPC Cloud Computing Demo Goal: Install Condor on the HPC cloud machine Run many Cellular Automata jobs Check graphical output How to install Condor on Debian: http://www.cs.wisc.edu/condor/debian/

  13. AWS - CloudWatch

  14. 8 cores !

  15. NKS Reference: http://telzur.blogspot.com/2008/01/mysteries-of-cellular-automata.html

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