Course: PHY1610 Scientific Computing for Physicists (Winter 2023)

Home All Courses Calendar Certificates SciNet CCDB

Topic outline

General

Collapse all Expand all
- PHY1610 Scientific Computing for Physicists (Winter 2023)
  This course is aimed at reducing your struggle in getting started with computational projects, and make you a more efficient computational scientist. Topics include well-established best practices for developing software as it applies to scientific computations, common numerical techniques and packages, and aspects of high performance computing. While we will introduce the C++ language, in one language or another, students should already have some programming experience. Despite the title, this course is suitable for many physical scientists (chemists, astronomers, ...).
  This is a graduate course that can be taken for graduate credit by UofT PhD and MSc students. Students that wish to do so, should enrol using ACORN/ROSI.
  Teacher: Ramses van Zon
  Start date: 10 Jan 2023
  End date: 30 Apr 2023
  Scientific Computing Credits: 28
  High Performance Computing Credits: 8
  Events:
  Scientific Computing Lecture (PHY1610) - Tuesday, 10 January, 11:00 AM » 12:00 PM
  Scientific Computing Lecture (PHY1510) - Thursday, 12 January, 11:00 AM » 12:00 PM
  Scientific Computing Lecture (PHY1610) - Tuesday, 17 January, 11:00 AM » 12:00 PM
  A full list of course events can be found here.
- Lecture Location: SciNet Teaching Room, 11th floor on the MaRS West Tower, 661 University Ave., Suite 1140, Toronto, ON M5G 1M1
  Date and Time: Tue/Thu 11:00 am - 12:00 noon EST
  Office Hours: In-person Wed 2-3 PM EST; Virtual Fri 12-1 PM EST
- Page
  
  Syllabus Page
- Forum
  
  Question forum
- Forum
  
  Announcements Forum
Lecture Slides
Lecture Recordings
- File
  
  Lecture 1: About the course and some C++ File
- File
  
  Lecture 2: More C++ File
- File
  
  Lecture 3: C++ Details File
- File
  
  Lecture 4: More C++: Dynamic memory allocation, smart pointers, objects, templates and standard libraries File
- File
  
  Lecture 5: Modularity File
- File
  
  Lecture 6: Version control with git File
- File
  
  Lecture 7: Working with libraries File
- File
  
  Lecture 8: Multidimensional arrays, rarray library, & OOP basics File
- File
  
  Lecture 9: Testing and Debugging File
- File
  
  Lecture 10: Representing numbers File
- File
  
  Lecture 11: Ordinary Differential Equations File
- File
  
  Lecture 12: File I/O and NetCDF
- File
  
  Lecture 13: Numerically Solving Partial Differential Equations File
- File
  
  Lecture 14: Basic Linear Algebra Libraries File
- File
  
  Lecture 15: Randomness in Scientific Computing File
- File
  
  Lecture 16: (Fast) Fourier Transforms File
- File
  
  Lecture 17: Measuring Performance File
- File
  
  Lecture 18: Intro to Parallel Computing File
- File
  
  Lecture 19: Shared Memory Parallel Programming with OpenMP File
- File
  
  Lecture 20: More OpenMP (last year's recording) File
  
  Due to technical difficulties, today's lecture was not recorded. Luckily, this particular lecture changed very little from last year, so we've posted last year's recording here.
- File
  
  Lecture 21: Intro to Message Passing Interface File
- File
  
  Lecture 22: Reductions and Domain Decomposition with MPI File
- File
  
  Lecture 23: Serial Farming File
- File
  
  Lecture 24: Programming GPUs with OpenMP File
Assignments
- Assignment
  
  Assignment 1: C++
  
  Opened: Thursday, 12 January 2023, 12:00 AM
  
  Due: Thursday, 19 January 2023, 11:59 PM
- Assignment
  
  Assignment 2: Code refactoring
  
  Opened: Thursday, 19 January 2023, 12:00 AM
  
  Due: Thursday, 26 January 2023, 11:59 PM
- Assignment
  
  Assignment 3: Modularize with make and git
  
  Opened: Friday, 27 January 2023, 12:00 AM
  
  Due: Friday, 3 February 2023, 11:59 PM
- Assignment
  
  Assignment 4: Two dimensional wave
  
  Opened: Friday, 10 February 2023, 12:00 AM
  
  Due: Friday, 17 February 2023, 11:59 PM
- Assignment
  
  Assignment 5: Solve ODE and store in NetCDF file
  
  Opened: Monday, 20 February 2023, 12:00 AM
  
  Due: Sunday, 5 March 2023, 11:59 PM
- Assignment
  
  Assignment 6: Using BLAS for the 1d wave
  
  Opened: Wednesday, 8 March 2023, 12:00 AM
  
  Due: Wednesday, 15 March 2023, 11:59 PM
- Assignment
  
  Assignment 7: Gravitational wave detection using FFT
  
  Opened: Thursday, 16 March 2023, 12:00 AM
  
  Due: Thursday, 23 March 2023, 11:59 PM
- Assignment
  
  Assignment 8: Parallel two-dimensional wave equation.
  
  Opened: Friday, 24 March 2023, 12:00 AM
  
  Due: Friday, 31 March 2023, 11:59 PM
- Assignment
  
  Assignment 9: Parallelize NetCDF data analysis
  
  Opened: Sunday, 2 April 2023, 12:00 AM
  
  Due: Monday, 10 April 2023, 11:59 PM
- Assignment
  
  Assignment 10: Managing many serial computations
  
  Opened: Monday, 10 April 2023, 12:00 AM
  
  Due: Monday, 17 April 2023, 11:59 PM
Additional Material and Links
- Page
  
  Submitting your repo as a zip or tar file Page
- URL
  
  MobaXterm: terminal for Windows with X11 server and SSH client and more URL
- URL
  
  Teach Cluster Quickstart URL
- URL
  
  C/C++/Fortran Compilers for Macs URL
- URL
  
  cplusplus.com C++ tutorial URL
- URL
  
  Learncpp.com: Lessons to learn C++ URL
- URL
  
  NetCDF C++ Interface Guide URL
- File
  
  NetCDF C++ example with 'unlimited' dimension File
- URL
  
  LAPACK reference documentation URL
- URL
  
  Intel MKL cblas documentation URL
- URL
  
  GNU Parallel URL