NAISS Training Newsletter
No 22, 19 April 2024
– Published 19 April 2024
Welcome to the next edition of the NAISS training newsletter.
NAISS provides an overview on all training events on the events webpage:
Overview
NAISS training
- Online training and support event: “NSC introduction to Tetralith/Sigma”, 23 April 2024 at 10:00
- Online training seminar: Introduction to Alvis, 23 April from 13:15 to 15:00
- Online webinar: Introduction to Code-Saturne, 26 April 2024
- Online training course: Introduction to Pandas for data science, LUNARC, 13 - 14 May 2024
- Online training course: Using Python in an HPC environment, UPPMAX & HPC2N, 15 May 2024
- Online training: Snakemake Hackathon, 22nd May
- Online hackathon: Bianca In-Depth: Improve Your Handling of Sensitive Research Data, 24 May 2024
- Online training: UPPMAX Introductory Course, 27-30 August 2024
Tuesday Tools & Techniques for High Performance Computing
- Episode 2: Day-to-day working on clusters, 23 April 2024
- Episode 3: Containers on clusters, 7 May 2024
- Episode 4: Parallelization and workflows, 14 May 2024
Online interactive support and discussion forum:
- NAISS Zoom-in - a virtual open-house, 25 April from 14:00 until 15:00
ENCCS training
- The AI for Science Bootcamp, 25-26 June
- Publicly available training material
- Training events from around Europe
NAISS training
Online training and support event: “NSC introduction to Tetralith/Sigma”, 23 April 2024 at 10:00
An online event with two parts:
- A short introduction suitable for new users to the NSC Tetralith (NAISS) and Sigma (LiU) clusters. Topics include the module system, submitting jobs, working with Python, allocating GPU:s for simulations or graphics and other useful information.
- An open session for questions with several NSC application experts attending.
Feel free to join (and leave) whenever depending on your interest. The online event is open for all present and prospective NSC users.
Time: 23 Apr 2024, 10:00 - ca. 11:15 Introduction, ca 11:15 - Open session
Location:Tetralith/Sigma Introduction Zoom link
The presentation will be available on the Tetralith/Sigma introduction webpage at NSC.
Online training seminar: Introduction to Alvis, 23 April from 13:15 to 15:00
This is seminar is for new and prospective users of the NAISS cluster for AI/ML, Alvis. You will learn all that you need to know to get started on the system.
Time: 23 April 13:15
Location: Alvis introduction Zoom link
For more information visit the C3SE events page.
Online webinar: Introduction to Code-Saturne 26 April 2024
A free open-source code for CFD applications. This webinar is suitable for researchers who already have experience using Computational Fluid Dynamics (CFD) codes. While this webinar is primarily geared for R&D personnel from the industrial/business arena, academic researchers and research software engineers with expertise in the CFD area are also welcome to attend.
When: Fri 2024-04-26, 15.00 - 16.00
Where: online via Zoom
For more information please visit the Code-Saturn introduction page at PDC.
Online training course: Introduction to Pandas for data science, LUNARC, 13 - 14 May 2024
This course will introduce the core Pandas data types, basic input/output routines, data selection and filtering, data inspection and cleaning methods, built-in and user-defined functions for data manipulation, hierarchical data structures, and some built-in visualization methods. There will be a mix of static examples and live demonstrations via Jupyter notebook, and exercises will be provided to complement the lecture materials.
For more information and access to registration, please visit the Pandas introduction page at LUNARC.
Online training course: Using Python in an HPC environment, UPPMAX & HPC2N, 15 May 2024
This course aims to give a brief, but comprehensive introduction to using Python in an HPC environment. You will learn how to use modules to load Python, how to find site installed Python packages, as well as how to install packages yourself. In addition, you will learn how to use virtual environments, write a batch script for running Python, use Python in parallel, and how to use Python for ML and on GPUs.
The course is a cooperation between UPPMAX and HPC2N. The instructors will use UPPMAX's systems for demos and there will be hands-on exercises for the participants.
This course will consist of lectures interspersed with hands-on sessions where you get to try out what you have just learned.
Remote/online participation: The course will be completely online and we will use Zoom. More information about connecting and such will be sent to the participants close to the course.
The goal for the course is that you will be able to
- Load Python modules and site-installed Python packages
- Create a virtual environment and install your own Python packages to it
- Write a batch script for running Python
- Use Python in parallel
- Use Python for ML
- Use GPUs with Python
Prerequisites: familiarity with the LINUX command line, basic Python
For more info and registration, please visit:
Online training: Snakemake Hackathon, 22nd May
Collaboration between CSC, Aalto University, PDC, ENCCS, and UPPMAX
Abstract: Snakemake is a common entry tool in the world of computational workflows, especially in Bioinformatics. The tool is designed to support you in setting up a workflow system, which opposed to a "your favorite language here" script, helps you keep track of your processes. For Snakemake, the user has to define inputs and outputs and the tool will figure out the order of steps and which steps can be run in parallel.
This Hackathon is open for all, free of charge and independent of field of Science and it is all about getting your own workflows to the supercomputer (Puhti, Mahti, Lumi or other).
Time: 22nd May, 09:00-14:00 (2024).
Detailed information at the Snakemake Hackathon page at Eventilla.com.
Online hackathon: Bianca In-Depth: Improve Your Handling of Sensitive Research Data, 24 May 2024
Are you already working with sensitive data in your research and feel that your workflows can be improved? If yes, welcome to 1 day hackathon where you'll learn smarter ways of working on the Bianca cluster. We will tell you how to do file transfer from a terminal, advanced SLURM, using IDEs (i.e. RStudio and/or VSCode), and installing custom software and packages.
The workshop will consist of short lectures and the content will be driven by questions from the participants.
To attend this course, we expect you to be able to login to Bianca, submit a Slurm bash script, and know how to transfer files.
You do not need to be a member of a NAISS-SENS project in order to join the workshop. A SUPR course project will be available to all participants.
When: Friday, May 24, 2024
Where: online via Zoom
For more information and registration please visit the Bianca hackathon page at UPPMAX.
Online course: UPPMAX Introductory Course, 27-30 August 2024
This 4-day course provides an introduction to the high-performance computing (HPC) environment offered at UPPMAX.
It offers an overview on how the systems work and covers skills from basic Linux usage to more advanced tips and tricks, including Python scripting.
Participation is open to all existing and prospective NAISS users.
When: August 27-30, 2024
Where: online via Zoom
For more information and registration, please visit the UPPMAX introduction course page.
Tuesday Tools & Techniques for High Performance Computing
Online Training: Tuesday Tools & Techniques for High Performance Computing, April-May, 2024
Cooperation between NAISS, Aalto University, CSC, NRIS, and CodeRefinery.
Do you use supercomputers in your research work? Are you curious about making your computing faster and more efficient? Join us for TTT4HPC: four self-contained episodes on best practices in High Performance Computing. This is a great chance to enhance your computational skills. What you will learn is also used a lot outside academia whenever large scale computations are needed.
Episodes are self-contained, you can join only for the episodes that are useful for your research.
Episode 2 - 23/04/2024 - Day-to-day working on clusters
Content: focus on software development on HPC, syncing data, interactive work with HPC, vscode
Episode 3 - 07/05/2024 - Containers on clusters
Content: focus on containers with Apptainer/Singularity, how to build containers for HPC, how to work with the filesystem, other practical examples with containers
Episode 4 - 14/05/2024 - Parallelization and workflows
Content: focus on parallelization with HPC, efficient parameter sweeps, workflow automation, hyperscaling pitfalls
For more information and registration, please visit the TTT4HPC page at Aalto Scientific Computing.
Online interactive support and discussion forum
NAISS Zoom-in - a virtual open-house, 25 April from 14:00 until 15:00
You are invited to a virtual meeting room. Inside the meeting room we like to discuss services offered by NAISS and how they can be used for your computational needs, help you process your data and visualise your results. Participants are highly encouraged to pose their own questions.
We also expect to have experts available from C3SE, HPC2N and LUNARC, to discuss the University operated HPC services at Chalmers, Umeå and Lund University.
Location: Zoom link for NAISS Zoom-in session on 25 April
ENCCS training
The AI for Science Bootcamp, 25-26 June
Abstract: The AI for Science Bootcamp provides a step-by-step overview of the fundamentals of deep neural networks and walks attendees through the hands-on experience of building and improving deep learning models for applications related to scientific computing and physical systems defined by differential equations.
The material will cover more advanced topics, such as physics-informed neural networks (PINNs) and operator learning and make use of tools like NVIDIA Modulus to develop and train the models. Furthermore, this online bootcamp is a hands-on learning experience where we will guide you through step-by-step instructions with teaching assistants on hand to help throughout.
Time: June 25-26, 9:00-13:30 (2024).
For more information information and registration, see the event pages:
Publicly available training material
ENCCS develops and maintains a library of training material on topics in HPC, AI and Quantum Computing which is suitable for self-paced learning, see the training library at ENCCS.
Training events from around Europe
Many HPC centres and National Competence Centres around Europe offer diverse HPC training workshops open to anyone in Europe, many of which are online. Upcoming workshops can be found at the European HPC Portal.