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June 2025 Maintenance Update

· 6 min read
Kristen Finch
Kristen Finch
HPC Staff Scientist

During June's maintenance, we've refreshed the operating system images for both login and compute nodes, and we've responded to user feedback with a solution to make Cron jobs persistent. Good news: we are holding office hours all summer to support your research grind. Stay informed by subscribing to our mailing list and the UW-IT Research Computing Events Calendar. The next maintenance is scheduled for Tuesday July 8, 2025 (AKA the 2nd Tuesday of the month).

Notable Updates​

  • Routine package updates - images for both the login and compute nodes have been refreshed to incorporate the latest Linux OS security updates and system patches.
  • Slurm database lock timeout settings adjusted to match documentation best practices.
  • Cron job system improvements – our users provided feedback that their Cron jobs were being lost after monthly maintenance. We resolve this:
    • User crontabs moved to GPFS (/gscratch) for persistence across maintenance
    • Only one login node will now run user cron jobs (preventing duplication)
    • Users will need to re-create their crontabs one more time after this maintenance
    • This is intended to be a permanent fix—no more resets in future maintenance
    • FYI - Cron jobs are recurring scheduled tasks run by the system using each user's crontab.
    • We recommend scrontab for routine operations. Learn more from Slurm. Learn more from NERSC.

Action Required: Research Computing Club (stf account) Members​

To keep your access to RCC-supported Hyak accounts, please fill out the following form by Friday, June 13, 2025:

2025 RCC Usage Check-In Form

This short form is required for Student Technology Fee reporting and ensures the RCC can continue offering free computing resources to UW students. It only takes a few minutes, just tell us how you’ve used RCC resources this past year. Thanks for helping us keep RCC resources funded and accessible!

Spotlight: Kopah Object Storage​

Our Kopah S3-compatible storage service is available to all campus researchers and staff. It’s a flexible, scalable storage solution to complement your research computing portfolio.

If you missed our recent Data Storage Day on May 5, we’ve published the full set of demonstration videos on our YouTube Playlist. Topics covered and relevant links:

Whether you're just getting started or looking to expand your use of campus storage resources, this is a great place to learn more.

Summer Office Hours​

  • Wednesdays at 2pm on Zoom. Attendees need only register once and can attend any of the occurrences with the Zoom link that will arrive via email. Click here to Register for Zoom Office Hours.
  • Thursdays at 2pm in person in eScience. (address: WRF Data Science Studio, UW Physics/Astronomy Tower, 6th Floor, 3910 15th Ave NE, Seattle, WA 98195).
  • See our office hours schedule, subscribe to event updates, and bookmark our UW-IT Research Computing Events Calendar.

If you would like to request 1 on 1 help, please send an email to help@uw.edu with "Hyak Office Hour" in the subject line to coordinate a meeting.

Opportunities​

Computing Training from eScience and more​

eScience logo.

Introduction to Text Mining - Friday, June 27, 2025, 2 – 3 p.m. Open Scholarship Commons Presentation Space, Discover the power of text mining in this interactive workshop, where you will learn techniques for collecting, cleaning, and analyzing textual data through hands-on exercises using Python and Jupyter Notebooks. In this session, you will: Learn methods for scraping and extracting text from web sources.

  • Gain skills in preprocessing textual data, such as removing HTML tags, tokenization, and handling stop words.
  • Explore techniques for visualizing and analyzing word frequencies to uncover hidden themes and trends.
  • Use deep learning models to identify relevant text by analyzing semantic similarity.
  • Register here

External Training Opportunities​

  • COMPLECS: Code Migration - Thursday, June 12, 2025 - 11:00 a.m. – 12:30 p.m. (Pacific Time) We will cover typical approaches to moving your computations to HPC resources: using applications/software packages already available on the system through Linux environment modules; compiling code from source with information on compilers, libraries, and optimization flags to use; setting up Python and R environments; using conda-based environments; managing workflows; and using containerized solutions via Singularity. Register here!
  • Automating Research with Globus: The Modern Research IT Platform - Aug. 18, 2025, 9 a.m. – 12 p.m. (Pacific Time) This workshop introduces Globus Flows and its role in automating research workflows. Participants will explore data portals, science gateways, and commons, enabling seamless data discovery and access. Enroll here.
  • HPC Fundamentals: June 11, 9 am – 4 pm PDT & June 12, 9 am – 12 pm PDT - This 1.5-day hybrid training, provided in collaboration with HPC Carpentries, is for novice HPC users to learn the basic skills they will need to start using an HPC resource. Capacity is limited to 40 learners; application and registration are required. Register here.
  • OLCF Julia for Science: June 19, 10 am – 1 pm PDT; also June 26, 10 am – 1 pm PDT - The Oak Ridge Leadership Computing Facility (OLCF), in conjunction with the Oak Ridge National Laboratory Computer Science and Mathematics Division (CSMD), will host Julia for Science, a 3-hour tutorial focused on introductory aspects of the Julia programming language, and ecosystem for computation and data analysis. This training provides a hands-on way to learn more about using Julia and parallel code in scientific computing. Register here.
  • Crash Course in Supercomputing: June 23, 9 am – 4 pm PDT - In this course, students will learn to write parallel programs that can be run on a supercomputer. We begin by discussing the concepts of parallelization before introducing MPI and OpenMP, the two leading parallel programming libraries. Finally, the students will put together all the concepts from the class by programming, compiling, and running a parallel code on one of the NERSC supercomputers. Training accounts will be provided for students who have not yet set up a NERSC account. This hybrid training, as part of the 2025 Berkeley Lab Computational Sciences Summer Student Program, is also open to NERSC, ALCF, LANL, OLCF, and TACC users. This training is geared towards novice parallel programmers. Register here.

If you have any questions about using Hyak, please start a help request by emailing help@uw.edu with "Hyak" in the subject line.

Happy Computing,

Hyak Team

May 2025 Maintenance Update

· 7 min read
Kristen Finch
Kristen Finch
HPC Staff Scientist

During May's maintenance, we've refreshed the operating system images for both login and compute nodes with the latest Linux security updates and patches, and enhanced the node image to include NVIDIA Fabric Manager and software upgrades for next-generation GPU switching fabrics. There’s still time to register for GPU in EDU on Thursday, May 15th, 10:00 a.m.–4:00 p.m., where we team up with NVIDIA and Cambridge Computer for a day of demos, teaching guidance, and research highlights. Stay informed by subscribing to our mailing list and the UW-IT Research Computing Events Calendar. The next maintenance is scheduled for Tuesday June 10, 2025 (AKA the 2nd Tuesday of the month).

Notable Updates​

  • Operating system - The images for both the login and compute nodes have been refreshed to incorporate the latest Linux OS security updates and system patches.
  • Node image enhancements - This version of the node image includes NVIDIA Fabric Manager and software upgrades necessary to support next-generation GPU switching fabrics.

Upcoming Events​

Subscribe to event updates and bookmark our UW-IT Research Computing Events Calendar.

  • There's still time to sign up for GPU in EDU Thursday May 15th 10:00 a.m. - 4:00 p.m.
    • Join us for a full day of learning about GPUs with experts from NVIDIA and Cambridge Computer. The event will feature recommendations for building GPU workflows, guidance for using GPUs for teaching, highlights of GPU-powered research at UW, and more. Don’t miss it — Lunch is provided! Registration is still open!

Spring Office Hours​

If you would like to request 1 on 1 help, please send an email to help@uw.edu with "Hyak Office Hour" in the subject line to coordinate a meeting.

Training Resources​

Opportunities​

Computing Training from eScience and more​

eScience logo.
  • Intro Programming Workshop - eScience is holding a Software Carpentry workshop on May 27th–30th (9:00 a.m. – noon each day). The workshop will teach software tools that can make researchers more effective, automate research tasks, and track research over time. Specifically, the Unix Shell, Git, and Python will be taught with a focus on reproducible research. Register here.
  • Teach your own LLM - On Friday, May 23rd from 10:30 - noon in the Open Scholarship Commons, Jose Cols will lead the workshop “Teach your own LLM: Fine-tuning Models on Custom Datasets” covering how LLMs work and how to fine-tune a Llama 3 model for tasks like sentiment analysis and summarization.

External Training Opportunities​

  • COMPLECS: Using Regular Expressions with Linux Tools - Thursday, May 29, 2025 - 11:00 a.m. – 12:30 p.m. (Pacific Time) Regular expressions (regexes) provide a way to identify strings that match a specified pattern. They are extremely useful for preprocessing text and extracting results from high-performance computing and data science workloads. Primarily in the context of the Linux grep utility, we incrementally introduce the main features of regexes: string literals, specifying multiple characters, quantifiers, wildcards, anchors, character classes, grouping, and alternation. We also explore more advanced topics such as word boundaries, lazy and greedy matching, regex flavors (basic, extended, and Perl compatible), regexes with awk and sed, searching compressed files, and using large language models (LLMs) to create regexes. Register here!
  • 8:00 - 11:30 am (Pacific time), Wednesday, May 28, 2025 - LANL is hosting an Accelerated Python Tutorial, presented by Scot Halverson from Nvidia. This will include measuring, understanding, and improving performance of their python applications, including ML workflows using PyTorch and Tensorflow. This event is open to NERSC users. Learn more and register.
  • Building GPU-Accelerated Differentiable Simulations with NVIDIA Warp Python 1- 4 pm (Pacific time), Wednesday, May 28, 2025 - LANL is hosting a Building GPU-Accelerated Differentiable Simulations with NVIDIA Warp Python training, presented by Eric Shi from Nvidia. This approach lets developers harness GPU performance while maintaining the simplicity and flexibility of Python. This event is open to NERSC users. Learn more and register.
  • NERSC GPU Hackathon - NERSC, in conjunction with NVIDIA and the OpenACC organization, will be hosting an Open Hackathon from July 16th-18th with an opening day on July 9th as part of the annual Open Hackathon Series. Please note the deadline to submit a proposal is 11:59 PM Pacific, May 28, 2025. So apply now! Learn more.
  • A Deep Dive into the HPC SDK - 1:00 - 4:00 pm (Pacific time), Thursday, May 29, 2025 - LANL is hosting a Deep Dive into the Nvidia HPC SDK Training, presented by Scot Halverson from Nvidia. This talk will cover the broad set of compilers, tools, and libraries that make up the NVIDIA HPC SDK. This event is open to NERSC users. Learn more and register.
  • High Throughput Workflow Tools and Strategies - 8:30 am - 12:00 pm (Pacific time), Friday, May 30, 2025 - NERSC is hosting an online webinar presented by William Arndt of NERSC and Geoffrey Lentner from Advanced Computing, Purdue University. This training session will discuss and demonstrate multiple software tools for managing high throughput workloads: GNU Parallel, Snakemake, and Hypershell. The seminar is open to the general public. Learn more and register.
  • Solving Data Management Challenges with Globus - June 6, 2025, 9 a.m. – 12 p.m. (Pacific Time) Participants will engage in hands-on exercises to explore how Globus can streamline data movement across cloud and high-performance computing systems. Whether managing large datasets, enabling secure collaboration, or automating workflows, this session will equip participants with the knowledge and skills to maximize the benefits of Globus. Enroll here.
  • COMPLECS: Code Migration - Thursday, June 12, 2025 - 11:00 a.m. – 12:30 p.m. (Pacific Time) We will cover typical approaches to moving your computations to HPC resources: using applications/software packages already available on the system through Linux environment modules; compiling code from source with information on compilers, libraries, and optimization flags to use; setting up Python and R environments; using conda-based environments; managing workflows; and using containerized solutions via Singularity. Register here!
  • Automating Research with Globus: The Modern Research IT Platform - Aug. 18, 2025, 9 a.m. – 12 p.m. (Pacific Time) This workshop introduces Globus Flows and its role in automating research workflows. Participants will explore data portals, science gateways, and commons, enabling seamless data discovery and access. Enroll here.

If you have any questions about using Hyak, please start a help request by emailing help@uw.edu with "Hyak" in the subject line.

Happy Computing,

Hyak Team