Oregon State University Research HPC portal and documentation web site.https://docs.hpc.oregonstate.edu/Edward Davisen Fri, 05 Jun 2026 22:13:01 -0000 Fri, 05 Jun 2026 22:13:01 -0000 1440 MkDocs RSS plugin - v1.16.0 <h1>Support Request</h1><p>If you are having a problem or have a general question about your account withthe Center for Quantitative Life Sciences or the Wildwood H...</p>https://docs.hpc.oregonstate.edu/support/ Fri, 05 Jun 2026 19:54:23 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/support/ <h1>CEOAS Research Computing</h1><p><a href="./jupyterhub.md">JupyterHub</a><br><a href="./partitions.md">Partitions</a><br><a href="./slurm.md">Slurm</a><br><a href="./software.md">Software</a></p>https://docs.hpc.oregonstate.edu/ceoas/ Tue, 02 Jun 2026 20:37:22 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/ceoas/ <h1>Slurm</h1><p>The CEOAS HPC servers use the Slurm job scheduler for scheduling, allocating, and controlling jobs. This document aims to provide basic information, ...</p>https://docs.hpc.oregonstate.edu/ceoas/slurm/ Tue, 02 Jun 2026 20:34:25 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/ceoas/slurm/ <h1>CEOAS Software</h1><h2>Spack</h2><p>Spack is an open-source package manager that simplifies both building and deploying software with multiple different compilers and ...</p>https://docs.hpc.oregonstate.edu/ceoas/software/ Fri, 24 Apr 2026 07:15:26 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/ceoas/software/ <h1>Oregon State University Research HPC Documentation</h1><div class="grid cards" markdown>- :material-clock-fast:{ .lg .middle } **Quick Links** --- ...https://docs.hpc.oregonstate.edu/ Wed, 22 Apr 2026 16:44:49 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/ <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/ Wed, 22 Apr 2026 16:44:49 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/cqls/ <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/ Wed, 22 Apr 2026 16:44:49 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/cqls/about/policies/ <h1>New User 'onboarding' / FAQs</h1><h2>Assumptions</h2><p>You have experience using the command-line; if not, see Training below</p><h2>Accounts</h2><h3>How do I login? (SSH...</h3>https://docs.hpc.oregonstate.edu/cqls/faq/ Wed, 22 Apr 2026 16:44:49 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/cqls/faq/ <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/ Wed, 22 Apr 2026 16:44:49 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/cqls/gpu/ <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/ Wed, 22 Apr 2026 16:44:49 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/cqls/quick-start/ <h1>Requesting new software</h1><p>Please continue requesting software installs using the new software requestform:</p><p>[Request form](https://docs.hpc.oregonstate.edu...</p>https://docs.hpc.oregonstate.edu/cqls/software/request/ Wed, 22 Apr 2026 16:44:49 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/cqls/software/request/ <h1>Software List (Updated April 17, 2026)</h1><p>| name | arch | latest | updated | versions | ...</p>https://docs.hpc.oregonstate.edu/cqls/software/list/ Fri, 17 Apr 2026 06:37:04 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/cqls/software/list/ davised General explanation of differences between CQLS 16S library prepshttps://docs.hpc.oregonstate.edu/cqls/tips/16s-sequencing-protocol/ Thu, 16 Apr 2026 22:18:11 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/cqls/tips/16s-sequencing-protocol/ davised <h1>Submitting data to the NCBI Sequence Read Archive (SRA)</h1><h2>Pre-processing steps</h2><ul><li>[ ] Collect fastq.gz files for each sample</li><li>[ ] Rename fastq.gz files ...</li></ul>https://docs.hpc.oregonstate.edu/cqls/tips/submitting-sra-data/ Thu, 16 Apr 2026 22:18:11 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/cqls/tips/submitting-sra-data/ davised sullichr <h1>Using MATLAB on CQLS HPC</h1><h2>Introduction to MATLAB on the CQLS infrastructure</h2><p>Users that are looking to work with MathWorks MATLAB software are able to a...</p>https://docs.hpc.oregonstate.edu/cqls/tips/using-matlab-on-cqls-hpc/ Thu, 16 Apr 2026 22:18:11 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/cqls/tips/using-matlab-on-cqls-hpc/ <h1>Account Request</h1><p>Request a Wildwood HPC account by filling out the form below.</p><p>&lt;!-- Pointing at access-dev until the new honeypot/redirect handler is depl...</p>https://docs.hpc.oregonstate.edu/account-request/ Thu, 16 Apr 2026 21:29:35 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/account-request/ <h1>Presentations</h1><p>Presentations given by CQLS staff on HPC, bioinformatics, and research computing topics.</p><h2>2026</h2><p>| Date | Title | Event ||------|-------|...</p>https://docs.hpc.oregonstate.edu/cqls/presentations/ Mon, 06 Apr 2026 20:28:18 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/cqls/presentations/ <h1>Reports</h1><p>Technical reports and analyses produced by CQLS staff.</p><p>| Date | Title ||------|-------|| 2025-12-02 | [IO500 Benchmark Analysis](io500_analysis...</p>https://docs.hpc.oregonstate.edu/cqls/reports/ Mon, 06 Apr 2026 20:28:18 +0000Oregon State University Research HPC Documentationhttps://docs.hpc.oregonstate.edu/cqls/reports/ <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/