https://doc.eresearch.unige.ch/ 2026-04-24T09:35:34+00:00 https://doc.eresearch.unige.ch/ https://doc.eresearch.unige.ch/_media/wiki/logo.png text/html 2025-12-17T15:06:27+00:00 Anonymous (anonymous@undisclosed.example.com) https://doc.eresearch.unige.ch/hpc/access_the_hpc_clusters?rev=1765983987&do=diff Access the clusters Account To access the HPC clusters (Baobab/Yggdrasil/bamboo) and submit jobs, you need a valid HPC account. Access is reserved for: * Members of the University of Geneva (Unige) * Members of HES-SO GE * External collaborators text/html 2026-04-20T09:15:27+00:00 Anonymous (anonymous@undisclosed.example.com) https://doc.eresearch.unige.ch/hpc/accounting?rev=1776676527&do=diff Utilization and accounting When you submit jobs, they are using physical resources such as CPUs, Memory, Network, GPUs, Energy etc. We keep track of the usage of some of those resource. On this page we'll let you know how to consult your usage of the resource. We have several tools that you can use to consult your utilization: sacct, sreport, openxdmod text/html 2026-03-18T12:46:21+00:00 Anonymous (anonymous@undisclosed.example.com) https://doc.eresearch.unige.ch/hpc/applications_and_libraries?rev=1773837981&do=diff Applications on the clusters An important number of applications and libraries are available on Baobab and Yggdrasil, and we often offer multiple versions. The magic which allows that is lmod with the module command. This is the recommended way to load any application or libraries on the clusters. text/html 2026-02-02T15:08:16+00:00 Anonymous (anonymous@undisclosed.example.com) https://doc.eresearch.unige.ch/hpc/best_practices?rev=1770044896&do=diff Introduction This page gives best practices and tips on how to use the clusters Baobab and Yggdrasil. An HPC cluster is an advanced, complex and always-evolving piece of technology. It's easy to forget details and make mistakes when using one, so don't hesitate to check this section every now and then, yes, even if you are the local HPC guru in your team! There's always something new to learn ! text/html 2025-06-11T12:27:26+00:00 Anonymous (anonymous@undisclosed.example.com) https://doc.eresearch.unige.ch/hpc/data_life_cycle?rev=1749644846&do=diff Data Life Cycle Description This page will help users to understand how to manage their data on the cluster. We provide a quick example here, but for more details, please consult the Data Management Plan (DMP) provided by Unige. Each user is responsible for their data and must manage it from generation until deletion from the cluster. text/html 2026-03-11T13:20:05+00:00 Anonymous (anonymous@undisclosed.example.com) https://doc.eresearch.unige.ch/hpc/faq?rev=1773235205&do=diff FAQ: Frequently Asked Question General Please follow these steps: * Review this FAQ to see if your issue is addressed. * Check the current issues on the cluster here: <https://hpc-community.unige.ch/t/2024-current-issues-on-hpc-cluster/> (A new post is created each year for reference). * Post in the HPC-community under the category text/html 2025-06-11T12:27:26+00:00 Anonymous (anonymous@undisclosed.example.com) https://doc.eresearch.unige.ch/hpc/getting_started?rev=1749644846&do=diff HPC for dummies This document present in general what are computing clusters and what is High Performance Computing (HPC). It can be read out of curiosity, if you want to know what are those infrastructures for or if you are a potential future user with limited technical background. For more practical information on using unige HPC infrastructure, refer to the rest of the documentation. text/html 2026-02-09T15:22:49+00:00 Anonymous (anonymous@undisclosed.example.com) https://doc.eresearch.unige.ch/hpc/how_to_use_openondemand?rev=1770650569&do=diff Introduction Ondemand makes it easy for users to run jobs with graphics, such as JupyterLab, MATLAB, or a desktop. No need for complex setups like ssh tunneling or tools like x2go. We are confident that this new tool will prove valuable to many individuals, especially those who are beginners in or have limited experience in computing. Its primary aim is to provide a workspace centered around your research project while striving to relieve you of as many technical requirements as possible. text/html 2026-03-19T13:23:47+00:00 Anonymous (anonymous@undisclosed.example.com) https://doc.eresearch.unige.ch/hpc/hpc_clusters?rev=1773926627&do=diff How our clusters work We expect the HPC clusters users to know what an HPC cluster is and what parallel computing is. As all HPC clusters are different, it is important for any users to have a general understanding of the clusters they are working on, what they offer and what are their limitations.<a id="hpc_clusters_the_clusters"></a> text/html 2025-06-11T12:27:26+00:00 Anonymous (anonymous@undisclosed.example.com) https://doc.eresearch.unige.ch/hpc/hpc_glossary?rev=1749644846&do=diff Glossary * Baobab: This is the name of our HPC service, as well as the name of our first HPC cluster. * Batch: When you want to launch software with a program (e.g., Stata with a script), you do it in batch mode. * CPU: Central processing unit, the main computing unit of every computer that runs the text/html 2026-03-11T13:22:33+00:00 Anonymous (anonymous@undisclosed.example.com) https://doc.eresearch.unige.ch/hpc/linux?rev=1773235353&do=diff Linux on HPC clusters All the servers used in the cluster are using GNU/Linux, and more specifically Rocky 9. Having at least basic knowledge of Linux, and ideally with the command line (terminal), is a pre-requisite for using our clusters. You are also expected to be able to write a simple Bash/Shell script, as this is needed to create text/html 2025-07-25T10:18:04+00:00 Anonymous (anonymous@undisclosed.example.com) https://doc.eresearch.unige.ch/hpc/slurm?rev=1753438684&do=diff Slurm and job management What is Slurm ? According to Slurm official website : Slurm is an open source, fault-tolerant, and highly scalable cluster management and job scheduling system for large and small Linux clusters. Slurm has three key functions. * it allocates exclusive and/or non-exclusive access to resources (compute nodes) to users for some duration of time so they can perform work. text/html 2026-04-20T14:01:49+00:00 Anonymous (anonymous@undisclosed.example.com) https://doc.eresearch.unige.ch/hpc/start?rev=1776693709&do=diff HPC User Documentation Welcome on UNIGE's High Performance Computing (HPC) Baobab service documentation. You will find here all the information you need to use the unige's clusters Baobab, Yggdrasil, Bamboo and get started. In the documentation, when we talk about Baobab we may refer as the HPC service or one of our cluster.. Baobab. text/html 2026-02-13T15:36:49+00:00 Anonymous (anonymous@undisclosed.example.com) https://doc.eresearch.unige.ch/hpc/storage_on_hpc?rev=1770997009&do=diff Storage There are different types of storage on the clusters. This is important to understand where to store which type of data. Important: please note that Boabab and Yggdrasil have both the same architecture and logic regarding storage, however the data is text/html 2025-06-11T12:27:26+00:00 Anonymous (anonymous@undisclosed.example.com) https://doc.eresearch.unige.ch/hpc/team?rev=1749644846&do=diff central HPC team contact: hpc@unige.ch Yann Sagon HPC referent at the DiSTIC Adrien Albert HPC engineer at DiSTIC Gaël Rossignol HPC engineer at DiSTIC Remy Ressegaire Sys admin at Astro Local HPC team DPNC * Johnny Raine: dpnc compute nodes, dpnc storage text/html 2025-06-11T12:27:26+00:00 Anonymous (anonymous@undisclosed.example.com) https://doc.eresearch.unige.ch/hpc/toc?rev=1749644846&do=diff TOC for all the pages in the "HPC" namespace