Course: PHY1610 Scientific Computing for Physicists (Winter 2025)

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Select section PHY1610 Course Home

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PHY1610 Course Home

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- Select activity Course Description
  
  PHY1610 Scientific Computing for Physicists (Winter 2025)
  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.
  This is an in-person course.
  Teacher: Ramses van Zon
  Start date: 7 Jan. 2025
  End date: 15 Apr. 2025
  Scientific Computing Credits: 28
  High Performance Computing Credits: 8
  Events:
  PHY1610 Scientific Computing Lecture - Tuesday, 7 January, 11:00 AM » 12:00 PM
  PHY1610 Scientific Computing Lecture - Thursday, 9 January, 11:00 AM » 12:00 PM
  PHY1610 Scientific Computing Lecture - Tuesday, 14 January, 11:00 AM » 12:00 PM
  A full list of course events can be found here.
- Select activity Lecture Location: SciNet Teaching Room, 11th floor...
  
  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 11 AM - 12 PM EST
- Select activity Syllabus
  
  Syllabus Page
- Select activity Question Forum
  
  Question Forum
- Select activity Announcements
  
  Announcements Forum
Select section Lecture Slides

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Lecture Slides
- Select activity Lecture 1: Intro to the Course and C++
  
  Lecture 1: Intro to the Course and C++ File
- Select activity Lecture 2: C++ by example
  
  Lecture 2: C++ by example File
- Select activity Combined slides for lectures 1-3
  
  Combined slides for lectures 1-3 File
- Select activity Lecture 4: Debugging
  
  Lecture 4: Debugging File
- Select activity Lecture 5: Modular Programming
  
  Lecture 5: Modular Programming File
- Select activity Lecture 6: Objects and Arrays
  
  Lecture 6: Objects and Arrays File
- Select activity Lecture 7: Version control with Git
  
  Lecture 7: Version control with Git File
- Select activity Lecture 8: Libraries and Testing
  
  Lecture 8: Libraries and Testing File
- Select activity Lecture 9: Numerics
  
  Lecture 9: Numerics File
- Select activity Lecture 10: Documentation and Teach Cluster
  
  Lecture 10: Documentation and Teach Cluster File
- Select activity Lecture 11: Ordinary Differential Equations
  
  Lecture 11: Ordinary Differential Equations File
- Select activity Lecture 12: Molecular Dynamics
  
  Lecture 12: Molecular Dynamics File
- Select activity Lecture 13: PDEs
  
  Lecture 13: PDEs File
- Select activity Lecture 14: Linear Algebra Packages
  
  Lecture 14: Linear Algebra Packages File
- Select activity Lecture 15: Measuring Performance
  
  Lecture 15: Measuring Performance File
- Select activity Lecture 16: Fast Fourier Transform
  
  Lecture 16: Fast Fourier Transform File
- Select activity Lecture 17: Random numbers
  
  Lecture 17: Random numbers File
- Select activity Lecture 18: Intro to HPC
  
  Lecture 18: Intro to HPC File
- Select activity Lecture 19: OpenMP (1/2)
  
  Lecture 19: OpenMP (1/2) File
- Select activity Lecture 20: OpenMP (2/2)
  
  Lecture 20: OpenMP (2/2) File
- Select activity Lecture 21: MPI part 1
  
  Lecture 21: MPI part 1 File
- Select activity Lecture 22: MPI part 2
  
  Lecture 22: MPI part 2 File
- Select activity Lecture 23: MPI + x
  
  Lecture 23: MPI + x File
- Select activity Lecture 24: OpenMP GPU programming
  
  Lecture 24: OpenMP GPU programming File
Select section Lecture Recordings

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Lecture Recordings
- Select activity Recording 1: Intro to Course and C++
  
  Recording 1: Intro to Course and C++ File
- Select activity Recording 2: C++ by example
  
  Recording 2: C++ by example File
- Select activity Recording 3: C++ details
  
  Recording 3: C++ details File
- Select activity Recording 4: Debugging
  
  Recording 4: Debugging File
- Select activity Recording 5: Modular Programming
  
  Recording 5: Modular Programming File
- Select activity Recording 6: Arrays and Objects
  
  Recording 6: Arrays and Objects File
- Select activity Recording 7: Version Control with GIT
  
  Recording 7: Version Control with GIT File
- Select activity Recording 8: Libraries and Testing
  
  Recording 8: Libraries and Testing File
- Select activity Recording 9: Numerics
  
  Recording 9: Numerics File
- Select activity Recording 10: Documentation and Teach Cluster
  
  Recording 10: Documentation and Teach Cluster File
- Select activity Recording 11: Ordinary Differential Equations
  
  Recording 11: Ordinary Differential Equations File
- Select activity Recording 12: Molecular Dynamics
  
  Recording 12: Molecular Dynamics File
- Select activity Recording 13: Partial Differential Equations
  
  Recording 13: Partial Differential Equations File
- Select activity Recording 14: Linear Algebra Packages
  
  Recording 14: Linear Algebra Packages File
- Select activity Recording 15: Measuring Performance
  
  Recording 15: Measuring Performance File
- Select activity Recording 16: Fast Fourier Transform
  
  Recording 16: Fast Fourier Transform File
- Select activity Recording 17: Random numbers
  
  Recording 17: Random numbers File
- Select activity Recording 18: Intro to HPC
  
  Recording 18: Intro to HPC File
- Select activity Recording 19: OpenMP (1/2)
  
  Recording 19: OpenMP (1/2) File
- Select activity Recording 20: OpenMP (2/2)
  
  Recording 20: OpenMP (2/2) File
- Select activity Recording 21: MPI (part 1)
  
  Recording 21: MPI (part 1) File
- Select activity Recording 22: MPI part 2
  
  Recording 22: MPI part 2 File
- Select activity Recording 23: MPI + x
  
  Recording 23: MPI + x File
- Select activity Recording 24: OpenMP GPU Programming
  
  Recording 24: OpenMP GPU Programming File
Select section Assignments

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Assignments
- Select activity Assignment 1: C++ coding
  
  Assignment 1: C++ coding
  
  Opened: Thursday, 16 January 2025, 12:00 AM
  
  Due: Thursday, 23 January 2025, 11:59 PM
- Select activity Assignment 2: Modularization
  
  Assignment 2: Modularization
  
  Opened: Thursday, 23 January 2025, 12:00 AM
  
  Due: Thursday, 30 January 2025, 11:59 PM
- Select activity Assignment 3: Testing and Version Control
  
  Assignment 3: Testing and Version Control
  
  Opened: Thursday, 30 January 2025, 12:00 AM
  
  Due: Thursday, 6 February 2025, 11:59 PM
- Select activity Assignment 4: Numerics and Teach Cluster
  
  Assignment 4: Numerics and Teach Cluster
  
  Opened: Saturday, 8 February 2025, 12:00 AM
  
  Due: Saturday, 15 February 2025, 11:59 PM
- Select activity Assignment 5: Partial Differential Equations
  
  Assignment 5: Partial Differential Equations
  
  Opened: Thursday, 27 February 2025, 12:00 AM
  
  Due: Thursday, 6 March 2025, 11:59 PM
- Select activity Assignment 6: PDE with Fourier Transform
  
  Assignment 6: PDE with Fourier Transform
  
  Opened: Friday, 7 March 2025, 12:00 AM
  
  Due: Friday, 14 March 2025, 11:59 PM
- Select activity Assignment 7: Percolation
  
  Assignment 7: Percolation
  
  Opened: Friday, 14 March 2025, 12:00 AM
  
  Due: Friday, 21 March 2025, 11:59 PM
- Select activity Assignment 8: Parallel histogram computation with OpenMP
  
  Assignment 8: Parallel histogram computation with OpenMP
  
  Opened: Friday, 21 March 2025, 11:59 PM
  
  Due: Friday, 28 March 2025, 11:59 PM
- Select activity Assignment 9: Parallel histogram computation with MPI
  
  Assignment 9: Parallel histogram computation with MPI
  
  Opened: Monday, 31 March 2025, 12:00 AM
  
  Due: Monday, 7 April 2025, 11:59 PM
- Select activity Assignment 10: Hybrid MPI+OpenMP
  
  Assignment 10: Hybrid MPI+OpenMP
  
  Opened: Tuesday, 8 April 2025, 12:00 AM
  
  Due: Tuesday, 15 April 2025, 11:59 PM
Select section Additional Material and Links

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Additional Material and Links
- Select activity Teach Cluster Quickstart
  
  Teach Cluster Quickstart URL
- Select activity Submitting your repo as a zip or tar file
  
  Submitting your repo as a zip or tar file Page
- Select activity MobaXterm: terminal for Windows with X11 server and SSH client and more
  
  MobaXterm: terminal for Windows with X11 server and SSH client and more URL
- Select activity GSL Documentation
  
  GSL Documentation URL
- Select activity C/C++/Fortran Compilers for Macs
  
  C/C++/Fortran Compilers for Macs URL
- Select activity cplusplus.com C++ tutorial
  
  cplusplus.com C++ tutorial URL
- Select activity Learncpp.com: Lessons to learn C++
  
  Learncpp.com: Lessons to learn C++ URL
- Select activity NetCDF C++ Interface Guide
  
  NetCDF C++ Interface Guide URL
- Select activity NetCDF C++ example with 'unlimited' dimension
  
  NetCDF C++ example with 'unlimited' dimension File
- Select activity LAPACK reference documentation
  
  LAPACK reference documentation URL
- Select activity Intel MKL cblas documentation
  
  Intel MKL cblas documentation URL

Topic outline

PHY1610 Course Home

PHY1610 Scientific Computing for Physicists (Winter 2025)

Lecture Slides

Lecture Recordings

Assignments

Additional Material and Links