Meeting 19 Aug, 13-14 Focus MATLAB¶

Dates¶

week 43: Mon 21 Oct - Fri 25 Oct:

• Onboarding: Mon 21 Oct at : Bj+ Ri
• Python: Tuesday 22nd Oct: Re + Bi + PO ?Ri
• Julia: Wednesday 23rd Oct BC, P
• R: Thursday 24th Oct: Ri?
• Matlab: Friday 25th Oct: Bi + Bj + Pe + Re

General meetings on Fridays(?) every week

Zoom: [Zoom URL]

• Look-up before:
  • VS code implementation
    • there is extension
  • gurobi/comsol/other?
  • home desktop
    • works on UPPMAX (batch part, not pool)
    • documentation soon updated

Content¶

• Fill in here: https://github.com/UPPMAX/R-python-julia-HPC/tree/main/docs/matlab
• Intro
  • [name=Rebecca]
• load/run
  • [name=Rebecca]
  • shell scripts
  • thinlinc
• add-ons/packages
  • [name=Björn]
• slurm (matlab agnostic)
  • [name=Birgitte]
• parallel (can be divided)
  • syntax
  • pool
  • matlab batch
  • shell batch
  • [name=Pedro]

• GPU

  • [name=]

• PARALLEL SESSIONS

  • desktop on demand (COSMOS)
    • [name=Rebecca]
  • local desktop (UPPMAX)
    • [name=Björn]
  • (jupyter notebook)
    • [name=Pedro]
• interaction with other tools (brief)

  - [name=]¶

Matlab on different systems¶

• Tetralith: https://www.nsc.liu.se/software/installed/tetralith/matlab/
• Kebnekaise: (config) https://www.hpc2n.umu.se/resources/software/configure-matlab-2018 (running) https://www.hpc2n.umu.se/resources/software/matlab
• Lunarc ondemand: https://lunarc-documentation.readthedocs.io/en/latest/guides/applications/MATLAB/
• Alvis: https://www.c3se.chalmers.se/documentation/applications/matlab/

ToDo:s¶

• [x] add matlab in repo name?
• Ask Joachim and Magnus about cosmos GPU configs and whether we can use cosmos for the course - settings fixed at https://lunarc-documentation.readthedocs.io/en/latest/manual/submitting_jobs/manual_specifying_requirements/#accessing-gpus
• Course projects on?
  • UPPMAX/Rackham-Snowy for all NAISS users
  • HPC2N/Kebnekaise for HPC2N users
  • LUNARC/Cosmos for Lund users
• Different ways of running MATLAB between OnDemand Desktop on COSMOS vs Tetralith, UPPMAX, etc.

Python (Tuesday 2024-10-22)¶

Time	Topic	Teacher
9.00	Syllabus	Rebecca
9.10	Python in general	Rebecca
9.20	Load modules and run	Rebecca
9.45	Break	.
10:00	Packages (45–>30)	Richel
10.30	Break	.
10.45	Isolated environments (ML, venv, conda)	Richel (45–>60)
11:45	Break or informal chat	Richel
12.00	Lunch	.
13.00	Batch	Birgitte
13:20	GPU	Birgitte
13.30	Kebnekaise: Jupyter	Birgitte
.	Rackham: Interactive session and Jupyter	Richel
13.45	Break	.
14.00	Parallel and multithreaded functions	Pedro
14.25	Conclusion & Q/A	Birgitte
14.45	.	.
15.00	END

Julia (Wednesday 2024-10-23)¶

Time	Topic	Teacher
9.00	Syllabus 7	Björn
9.10	Intro, Julia in general 23	Pedro
9.30	Load modules and run 16	Björn
9:45	Break	.
10:00	Packages and isolated 47	Pedro (and Björn)
11:00	Break	.
11:15	Parallel+multithreaded functions 30	Pedro
11.45	Break or informal chat or exer	all?
12.00	Lunch	.
13.00	Batch and GPU 46	Pedro
13.50	Break	.
14.00	UPPMAX: Jupyter and interactive 25	Björn
.	HPC2N: Jupyter	Pedro
14.25	Conclusion and summary, Q/A	Björn
14.35	.	.
14.45	Q/A	.
15.00	END	.

R (Thursday 2024-10-24)¶

Time	Topic	Teacher
9:00	Syllabus	Richel
9:10	R in general	Richel
9:20	Load modules and run	Richel
9:45	Break	.
10:00	Packages	Birgitte
10:30	Break	.
10:45	Kebnekaise, ThinLinc & RStudio	Pedro
.	UPPMAX: ThinLinc, RStudio, inter-	Richel <— NEW
11:15	Parallel	Pedro
11:50	Break or informal chat	All
12:00	Lunch	.
13:00	Isolated environments	Birgitte
13:20	Batch	Birgitte
13:50	Break	.
14:00	ML	Birgitte or Pedro <— NEW
14:35	Conclusion & Q/A	All
14:45	Evaluation	.
15:00	END	.

Matlab (Friday 2024-10-25)¶

Time	Topic	Teacher
9:00	Syllabus

Meeting 20 May¶

• Typical sessions
  • load, run, scripts, thinlinc
  • packages/plug-ins
    • check vs code implementation
      • https://content.mathworks.com/viewer/6616d1a654a921f7493cf4f6
    • gurobi/comsol etcetra
  • isolated? check
  • batch
  • interactive
  • parallelisms
  • gpus
  • ML