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 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/silo.shtml – http://www.e- science.le.ac.uk/format/silocode.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

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

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

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

14. AWS - CloudWatch

15. 8 cores !

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