Oregon State University Research HPC portal and documentation web site.https://docs.hpc.oregonstate.edu/Edward Davisen Fri, 30 Jan 2026 20:05:58 -0000 Fri, 30 Jan 2026 20:05:58 -0000 1440 MkDocs RSS plugin - v1.15.0 <h1>renv 1.1.4</h1><ul><li>Fixed an issue where <code>renv</code> could erroneously record packages installed from Posit Package Manager snapshots as being installed from CRAN. ...</li></ul>https://docs.hpc.oregonstate.edu/cqls/presentations/2025-11-12-supercomputing/renv/library/macos/R-4.4/aarch64-apple-darwin20/renv/NEWS/ Fri, 30 Jan 2026 20:06:00 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/cqls/presentations/2025-11-12-supercomputing/renv/library/macos/R-4.4/aarch64-apple-darwin20/renv/NEWS/ <h1>CEOAS JupyterHub</h1><p>For CEOAS users running Jupyter notebooks and other interactive software on the cluster, CEOAS has a JupyterHub server available to on-cam...</p>https://docs.hpc.oregonstate.edu/ceoas/jupyterhub/ Sun, 25 Jan 2026 04:42:26 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/ceoas/jupyterhub/ <h1>Partitions</h1><p>The CEOAS partitions are summarized as follows:</p><p>| partition | description || --------- | ----------- || ceoas | General-use partition for CE...</p>https://docs.hpc.oregonstate.edu/ceoas/partitions/ Sun, 25 Jan 2026 04:42:26 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/ceoas/partitions/ <h1>CEOAS Software</h1><p>Under construction. Please watch warmly until it is ready.</p>https://docs.hpc.oregonstate.edu/ceoas/software/ Sun, 25 Jan 2026 04:42:26 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/ceoas/software/ <h1>Chalkboard</h1><p>With this plugin you can add a chalkboard to reveal.js. The plugin provides two possibilities to include handwritten notes to your presentation...</p>https://docs.hpc.oregonstate.edu/cqls/presentations/2025-10-31-HPC/index_files/libs/revealjs/plugin/reveal-chalkboard/ Thu, 06 Nov 2025 00:10:10 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/cqls/presentations/2025-10-31-HPC/index_files/libs/revealjs/plugin/reveal-chalkboard/ <h1>Using GPUs on the CQLS infrastructure</h1><p>GPU-enabled software can accelerate data analysis by orders of magnitude over CPUs. Currently only NVIDIA GPUs area...</p>https://docs.hpc.oregonstate.edu/cqls/gpu/ Mon, 11 Aug 2025 16:49:45 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/cqls/gpu/ <h1>CEOAS Research Computing</h1><p><a href="./jupyterhub.md">JupyterHub</a><a href="./partitions.md">Partitions</a><a href="./software.md">Software</a></p>https://docs.hpc.oregonstate.edu/ceoas/ Thu, 13 Feb 2025 23:16:51 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/ceoas/ <h1>COE Research Computing</h1>https://docs.hpc.oregonstate.edu/coe/ Thu, 13 Feb 2025 23:16:51 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/coe/ <h1>Welcome to the CQLS HPC Documentation Website</h1><p>The Center for Quantitative Life Sciences (CQLS) has established a newhigh-performance computing (HPC) infr...</p>https://docs.hpc.oregonstate.edu/cqls/quick-start/ Thu, 13 Feb 2025 23:16:51 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/cqls/quick-start/ <h1>Using conda on the CQLS infrastructure</h1><p>Our recommendation for new conda environments is to use the <a href="https://pixi.sh/latest/">pixi</a> tool for managing new c...</p>https://docs.hpc.oregonstate.edu/cqls/software/conda/ Wed, 23 Oct 2024 00:09:02 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/cqls/software/conda/ <h1>Using pixi in place of conda</h1><p>Reference links:</p><ul><li><a href="https://pixi.sh/latest/switching_from/conda/">https://pixi.sh/latest/switching_from/conda/</a></li><li>&lt;https://pixi.sh/latest/features/environment/#activation...</li></ul>https://docs.hpc.oregonstate.edu/cqls/software/conda/pixi/ Wed, 23 Oct 2024 00:09:02 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/cqls/software/conda/pixi/ <h1>CQLS Gitlab down time Thursday Oct, 17</h1><h2>Update notice from Ken Lett, CQLS Infrastructure Mananger for Biocomputing</h2><p>Hello CQLS Community,</p><p>Due to techni...</p>https://docs.hpc.oregonstate.edu/cqls/announcements/20241016-gitlab/ Thu, 17 Oct 2024 00:59:56 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/cqls/announcements/20241016-gitlab/ <h1>Using singularity images</h1><p>The CQLS has installed <a href="https://docs.sylabs.io/guides/latest/user-guide/">singularity</a> on compute nodes to facilitatecontaineriz...</p>https://docs.hpc.oregonstate.edu/cqls/software/singularity/ Wed, 09 Oct 2024 06:16:45 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/cqls/software/singularity/ <h1>CQLS Research Computing</h1><div class="grid cards" markdown>- :material-clock-fast:{ .lg .middle } **Quick Links** --- * [:material-connection:...https://docs.hpc.oregonstate.edu/cqls/ Sat, 21 Sep 2024 11:23:04 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/cqls/ <h1>Why did you develop a new, distinct infrastructure?</h1><p>We had several goals in mind when deciding to move to a new infrastructure:</p><ol><li>Modernization</li><li>Ease ...</li></ol>https://docs.hpc.oregonstate.edu/cqls/about/ Sat, 21 Sep 2024 11:23:04 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/cqls/about/ <h1>General Use Policies</h1><p>All individuals using the CQLS infrastructure are required to adhere toappropriate data management, software licensing and the[Oreg...</p>https://docs.hpc.oregonstate.edu/cqls/about/policies/ Sat, 21 Sep 2024 11:23:04 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/cqls/about/policies/ <h1>Bioinformatics Users Group (BUG)</h1><p>The CQLS hosts bi-weekly bioinformatics users group meetings every Fall, Winter, and Spring term.</p><p>We encourage folks of ...</p>https://docs.hpc.oregonstate.edu/cqls/bug/ Sat, 21 Sep 2024 11:23:04 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/cqls/bug/ <h1>BUG Presentation Archive</h1><p>This page will serve as a repository for BUG meetings. <em>It is currently under construction.</em></p>https://docs.hpc.oregonstate.edu/cqls/bug/presentations/ Sat, 21 Sep 2024 11:23:04 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/cqls/bug/presentations/ <h1>Configuration on the new HPC infrastructure</h1><p>In order to better support multiple computing groups around campus as well as to support a heterogenous comput...</p>https://docs.hpc.oregonstate.edu/cqls/configuration/ Sat, 21 Sep 2024 11:23:04 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/cqls/configuration/ <h1>Dotfile overview</h1><p><a href="https://en.wikipedia.org/wiki/Hidden_file_and_hidden_directory#Unix_and_Unix-like_environments">Dotfiles</a>control the configuration of y...</p>https://docs.hpc.oregonstate.edu/cqls/configuration/dotfiles/ Sat, 21 Sep 2024 11:23:04 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/cqls/configuration/dotfiles/