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- Overview - High Performance Computing - SI Collaboration WIKI
Pages High Performance Computing Overview Created by Korzennik, Sylvain, last updated on Nov 13, 2025 2 minute read
- High Performance Computing - High Performance Computing - SI . . .
Overview; Requesting an Account on Hydra; Citing Acknowledging Hydra; What's New; Policies; Hydra Training; Quick Start guide; Reference pages; Globus; Dedicated RStudio Server; Explanation of Warning EMails Sent to Users; FAQs; Cluster Upgrades 2025 Data Center Move The complete documentation can be downloaded as a PDF document (250+ pages
- Introduction - High Performance Computing - SI Collaboration WIKI
Preamble Access to the Cluster Using the Cluster Software Overview Support 1 Preamble The cluster, known as Hydra, is made of one front-end node, two login nodes, a queue manager job scheduler, and a set of compute nodes To access the cluster you must log on one of the two login nodes, using ssh: ssh hydra-login01 si edu or ssh hydra-login02
- Whats New - High Performance Computing - SI Collaboration WIKI
Dec 16, 2025 The production RStudio server was upgraded with an updated OS and R version The production RStudio server was upgraded with an updated OS and R version Dec 8, 2025 QSubGen was updated to include virtual memory and GPU qstat+ has new sorting and limiting options QSubGen was updated to include virtual memory and GPU qstat+ has new sorting and limiting options Dec 5, 2005 1
- Reference Pages - High Performance Computing - SI Collaboration WIKI
The references pages are organized as follows: Introduction Hardware Login and Head Nodes Compute Nodes Network: Ethernet and InfiniBand Storage Systems (Disks) Submitting Jobs Conceptual Examples Serial Jobs Parallel Jobs Job Arrays Available Queues Resource Limits Job Monitoring Help Choosing a Queue Help Writing a Job Script Where to Find Examples Interactive Use Using a Jupyter Notebook on
- Using the RStudio Server - High Performance Computing - SI . . .
File transfer R Session Installing packages Packages Requiring Newer GCC 1 Overview Hydra now offers a dedicated RStudio Server for interactive running of R-based workflows using a familiar GUI Users can leverage this server to test, debug, and develop R based workflows using the interactive R Studio GUI (currently running R 4 5 2)
- Storage Systems (Disks) - High Performance Computing - SI Collaboration . . .
The disk space available on the cluster is mounted off two dedicated devices (NetApp and GPFS); a third one (NAS) is not accessible from all the compute nodes The NAS is only accessible from the login, interactive and I O nodes (hence it is a near-line storage system) The available public disk space is divided in several area (aka partitions): a small partition for basic configuration files
- Software - High Performance Computing - SI Collaboration WIKI
Introduction Unix Basic Configuration Module EMail forwarding The plan project files The "module" Command Introduction Available Module Files How to Write your Own Modules Files Compilers Libraries How to build and run MPI programs How to build and run multi-threaded programs Packages and Tools IDL FL Java Julia Matlab Python R (old) Conda: Anaconda Miniconda Genomics Software BLAST
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