Berkeley Research Computing

Research IT staff from UC campuses meet in Irvine

Participants around the table at the UC Research IT meeting at UC Irvine, November 2016

On November 10, 2016, Research IT staff from across the University of California system met at UC Irvine to discuss trends in research computing and opportunities for collaboration. The one-day session was facilitated by David Greenbaum (UC Berkeley) and Christine Kirkpatrick (UC San Diego). Patrick Schmitz, Chris Hoffman, and Maurice Manning also represented Berkeley. The organizers set the following goals for the day:

IPython notebook available to ease data transfer between Savio and Box

Screenshot from the iPython notebook configured for Box access,TransferFilesFromBoxToSavioScratch.ipynb

For researchers running computation on the Savio high-performance compute cluster, data transfer can be a challenge. A new IPython notebook simplifies data transfer from the free Box collaboration platform to a Savio user’s scratch folder, and provides a template for users to develop their own algorithms that analyze data stored in Box.

Systems Neuroscientists use BRC services to understand the neural basis of perception

Evan Lyall

A childhood filled with Lego blocks, nature documentaries, science fiction novels, and some amazing science teachers led Evan Lyall to know that he wanted to study Bioengineering in college, but left him unsure of the direction he should go with that training.

Migrating half a million Hearst Museum images to Box

Card catalog images, representative of 527,000 similar images migrated to Box

The Phoebe A. Hearst Museum of Anthropology (PAHMA) recently found itself with over half a million digital catalog card images that are in active use, but needed to be duplicated in order to preserve them in a redundant, reliable archive. Copying a few hundred, or even a few thousand files is a relatively straightforward task. Assuring that 527,000 files are successfully copied in a reasonable period of time, without requiring constant attention, is trickier. Research IT worked with PAHMA’s Dr.

Atmospheric chemists use Savio to build computational gas emission models

Professor Ron Cohen and team

Ron Cohen, Professor of Chemistry and Earth and Planetary Sciences at UC Berkeley, and graduate students Alexis Shusterman, Josh Laughner, and visiting Harvard graduate student Alex Turner, are “trying to create a model of the world that matches the observations of the world.” That is, Cohen’s team is using sensor technology to measure the concentrations of atmospheric gases at both local and global scales, and from that data develop computational models that describe the emission processes and rates that cause those observations.

Aron D. Roberts's picture

Savio HPC cluster intermediate training on September 27, 2016

Savio training, 2 Aug 2016, AIS

An intermediate-level training session on the use of Savio and other Berkeley Research Computing high performance computing (HPC) clusters (Cortex and Vector) will be offered on Tuesday, September 27, 2016. If you’re a current or prospective user of one of these clusters, and already have some experience using HPC resources, you are invited to expand your skills via this free training.