NIH Controlled-Access Data and Repositories
Effective January 25, 2025, new or renewed Data Use Certifications for NIH Controlled-Access Data and Repositories must adhere to the NIH Security Best Practices for Users of Controlled-Access Data. While YCRC's new Hopper cluster is in development, Yale has completed appropriate documentation for McCleary to be used as an approved location of NIH Controlled-Access Data and Repositories, with the certain conditions. See our NIH Controlled-Access Data documentation for more information and to request access.
The Bouchet Cluster is Now Available
The Bouchet HPC cluster, YCRC first installation at MGHPCC, is now in production. The first installation of nodes, approximately 4,000 direct-liquid-cooled cores, are dedicated to tightly coupled parallel workflows, such as those run in the “mpi” partition on the Grace cluster. Later on this spring we will be acquiring and installing a large number of general purpose compute nodes as well as GPU-enabled compute nodes. At that point Bouchet will be available to all Yale researchers for computational work involving low-risk data. See the Bouchet page for more information and updates.
Introduction
The Yale Center for Research Computing provides support for research computing at Yale University. Our most active area for support is High Performance Computing, however we also support other computationally intensive research. In addition, we work with faculty and research groups across disciplines to design and maintain cost-effective computing capabilities.
Get Help
To best serve the research community, we provide one-on-one consulting and use a support tracking system.
Troubleshooting Login Issues
If you are experiencing issues logging into one of the clusters, please first check the current System Status for known issues and check the Troubleshoot Login guide first before seeking additional assistance.
Web and Email Support
To submit requests, issues, or questions please send us an email at hpc@yale.edu or sign on to our online support system at help.ycrc.yale.edu. Your login credentials there are your email and a password of your choosing, not your CAS password.
Once received, our system will send an automated response with a link to a ticket. From there we'll track your ticket and make sure it's handled properly by the right person. Replies via email or the online support system go to the same place and are interchangeable. Constructive feedback is much appreciated.
Office Hours via Zoom
The YCRC hosts weekly office hours via Zoom on Wednesdays at 11am-12pm EST. Every Wednesday, Research support team members will be available to answer questions about the HPC clusters, data storage, cluster usage, etc. No appointments are necessary.
Link: https://yale.zoom.us/my/ycrcsupport
Phone: 203-432-9666 (2-ZOOM if on-campus)or 646 568 7788; Meeting ID: 224 666 8665
YouTube Channel
The YCRC YouTube channel features recorded tutorials and workshops that cover a wide range of computing topics. New videos are added regularly and suggestions for topics can be submitted by emailing research.computing@yale.edu.
One-on-One Support
Research support team members are available by appointment for one-on-one support. See the table below for information about each person's area of particular focus. Please send requests for appointments with a team member to research.computing@yale.edu. If you have a general question or are unsure about who to meet with, include as much detail as possible about your request and we'll find the right person for you.
| Specialist | Cluster(s) | Areas of Focus |
|---|---|---|
| Kathleen McKiernan | All | Getting Started |
| Rob Bjornson, Ph.D. | McCleary | Life Sciences, Bioinformatics, Python, R |
| Sam Friedman | McCleary | Life Sciences, Bioinformatics, Python, R, Snakemake, Nextflow |
| Tom Langford, Ph.D. | Grace/Bouchet/Milgram | Physics, EPS dept, Python, MPI |
| Aya Nawano, Ph.D. | Grace/Bouchet | Molecular Dynamics, Matlab, C/C++, MPI |
| Kaylea Nelson, Ph.D. | Grace/Milgram | Astronomy, MPI, Python |
| Mike Rothberg, Ph.D. | Grace/McCleary | AI/ML, Computational Chemistry, Python, Matlab |
| Chuck Sindelar, Ph.D. | McCleary | Life Sciences, Cryo-EM/Structural Biology, Python, MPI, C/C++, Matlab |
| Michael Strickler, Ph.D. | McCleary | Life Sciences, Structural Biology |
| Ping Luo | Misha/Milgram | Wu Tsai Institute, Psychology dept, Open OnDemand |
| Misha Guy, Ph.D. | SRSC Software and Mathematica (email at mikhael.guy@yale.edu for appointment) |
Q&A Platform
The YCRC hosts a Q&A platform at ask.cyberinfrastructure.org. Post questions about the clusters and receive answers from YCRC staff or even your peers! The sub-site for YCRC related questions is available at ask.cyberinfrastructure.org/g/Yale.
Acknowledge the YCRC
If publishing work performed on a YCRC cluster or with assistance from YCRC staff, we greatly appreciate acknowledgement of our staff and computing time in your publication. A list of YCRC staff can be found on our Staff page, and the clusters are summarized on our HPC Resources page. Example acknowledgement below:
We thank the Yale Center for Research Computing, specifically [YCRC staff member name(s)], for guidance and assistance in computation run on the [cluster name here] cluster.
Additionally, if you would be willing to send the publication information to research.computing@yale.edu, that would assist our efforts to capture work performed on YCRC resources and we can promote your work on our research.computing.yale.edu website.