Educators:
Benjamin Wolff (ZB MED - Information Centre for Life Sciences - de.NBI assoziated Partner), Alan O'Cais (University of Barcelona), Pedro Fernandez (HPCNow!)

Date:
4 - 5 December - 09:00-16:00

Location:
Online

Contents:
This practical introduction to high performance computing (HPC) will cover all basic concepts needed to access an HPC cluster and to run applications and workflows there.

The course is built upon the Carpentries and HPC Carpentry online learning materials, with HPC Carpentry being a lesson program in incubation for the Carpentries. The Carpentries is a nonprofit organisation that teaches software engineering and data science skills to researchers in order to conduct efficient, open, and reproducible research. Their volunteer instructors (4287) have run 4000+ Workshops in 65 countries since 2012, with 450+ alone in 2022 [3]. All of their lesson materials are freely reusable under the Creative Commons - Attribution licence [4].

Here, we are offering a 2-day workshop, composed of 2 full-day sessions, with the primary goal of introducing High-Performance Computing (HPC) to individuals who have limited or no prior experience with such computing resources. The workshop will cover HPC resources, the cluster management tool Slurm, and how to run applications and workflows on these systems.

Learning goals:
By the end of this workshop, you will be able to:

• Identify problems a cluster can help solve
• Transfer files onto a cluster
• Comfortably manipulate files and directories, locally and on a remote resource
• Submit and manage jobs on a cluster using a scheduler
• Observe the benefits and limitations of parallel execution
• Understand how to construct a reliable, scalable and reproducible scientific workflow as a series of chained rules
• Use a subset of features of the Snakemake workflow tool
• Run a Snakemake workflow on an HPC resource

Prerequisites:
Join this workshop if you are:

• Interested in learning what HPC is
• Interested in learning how to access and use HPC resources
• Interested in running applications and workflows on HPC resources

Keywords:
HPC, Snakemake