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Center for High Performance Computing
Research Computing and Data Support for the University Community
In addition to deploying and operating high-performance computational resources and providing advanced user support and training, CHPC serves as an expert team to broadly support the increasingly diverse research computing and data needs on campus. These needs include support for big data, big data movement, data analytics, security, virtual machines, Windows science application servers, protected environments for data mining and analysis of protected health information, advanced networking, and more.
If you are new to the CHPC, the best place to learn about CHPC resources and policies is our Getting Started page.
Have a question? Please check our Frequently Asked Questions page and contact us if you require assistance or have further questions or concerns.
After nearly four decades of dedicated service at the University of Utah, Julia Harrison is retiring as the Operations Director of the Center for High Performance Computing.
Read moreAnita M. Orendt is a dedicated educator and researcher with a rich background in physical chemistry. Anita has made significant contributions to the academic community at the University of Utah.
Read moreUpcoming Events:
Allocation Requests for Winter 2025 are Due December 1st, 2024
Posted November 4th, 2024
Update to redwood idle session management following August 20, 2024 downtime
Posted September 3rd, 2024
Redwood Cluster Operating System Updated to Rocky Linux 8.10
Posted August 21st, 2024
Allocation Requests for Fall 2024 are Due September 1st, 2024
Posted August 7th, 2024
Allocation Requests for Summer 2024 are Due June 1st, 2024
Posted May 1st, 2024
CHPC Downtime: Tuesday March 5 starting at 7:30am
Posted February 8th, 2024
Two upcoming security related changes
Posted February 6th, 2024
Allocation Requests for Spring 2024 are Due March 1st, 2024
Posted February 1st, 2024
CHPC ANNOUNCEMENT: Change in top level home directory permission settings
Posted December 14th, 2023
CHPC Spring 2024 Presentation Schedule Now Available
CHPC PE DOWNTIME: Partial Protected Environment Downtime -- Oct 24-25, 2023
Posted October 18th, 2023
CHPC INFORMATION: MATLAB and Ansys updates
Posted September 22, 2023
CHPC SECURITY REMINDER
Posted September 8th, 2023
CHPC is reaching out to remind our users of their responsibility to understand what the software being used is doing, especially software that you download, install, or compile yourself. Read More...News History...
Using CHPC resources to calculate chemical similarity of species of tropical trees
By Gordon Younkin
Department of Biology, University of Utah
We have developed a metric to quantify the similarity of defensive compounds (secondary metabolites) among different species of plants. The goal is to address fundamental questions in the ecology of tropical forests: What is the origin of the extremely high diversity? How is the exceedingly high local diversity maintained? Our hypothesis is that the answers have to do with the interactions of plants with their herbivores, with particular importance ascribed to the chemical defenses of plants. Here, we report on how we used CHPC resources to quantify the chemical similarity among species of plants.
Using ultra performance liquid chromatography-mass spectrometry (UPLC-MS), we examined the chemical profiles of 166 species of Inga, a genus of tropical trees. Among these species, we have recorded nearly 5000 distinct compounds, most of which are of unknown structure. Based on the abundance of these compounds in each species, we can calculate the overall chemical similarity of each species pair. While each individual calculation is not all that resource-intensive, we have multiple individuals for each species for a total of 795 individuals. Pairwise comparisons between all individuals requires 316,410 separate similarity calculations, a task much too large for a desktop computer. We have parallelized these calculations on a CHPC cluster, where the calculations finish in a matter of hours.
System Status
General Environment
General Nodes | ||
---|---|---|
system | cores | % util. |
kingspeak | 942/952 | 98.95% |
notchpeak | 2940/3212 | 91.53% |
lonepeak | 1875/1932 | 97.05% |
Owner/Restricted Nodes | ||
system | cores | % util. |
ash | Status Unavailable | |
notchpeak | 17124/22004 | 77.82% |
kingspeak | 2506/5244 | 47.79% |
lonepeak | 72/416 | 17.31% |
Protected Environment
General Nodes | ||
---|---|---|
system | cores | % util. |
redwood | 548/628 | 87.26% |
Owner/Restricted Nodes | ||
system | cores | % util. |
redwood | 2717/6444 | 42.16% |