KAUST Supercomputing Laboratory Newsletter 17th September 2020

In this newsletter:

  • RCAC meeting
  • KAUST supercomputer Shaheen II joins the fight against COVID-19
  • Tip of the week: Processing large data sets on Shaheen
  • Follow us on Twitter
  • Previous Announcements
  • Previous Tips


RCAC meeting

The project submission deadline for the next RCAC meeting is 30th September 2020. Please note that the RCAC meetings are held once per month. Projects received on or before the submission


KAUST supercomputer Shaheen II joins the fight against COVID-19


King Abdullah University of Science and Technology (KAUST) invites researchers from across the Kingdom to submit proposals for COVID-19-related research. Recognizing the urgency to address global challenges related to the COVID-19 pandemic through scientific discovery and innovation, the University’s Supercomputing Core Laboratory (KSL) is making computing resources—including the flagship Shaheen II supercomputer and its expert scientists—available to support research projects.

Topics may include but are not limited to: understanding the virus on a molecular level; understanding its fluid-dynamical transport; evaluating the repurposing of existing drugs; forecasting how the disease spreads; and finding ways to stop or slow down the pandemic.

Accepted proposals can access the following resources: (1) Shaheen II, a Cray XC-40 supercomputer based on Intel Haswell processors with nearly 200,000 compute cores tightly connected with Aries high-speed interconnect; (2) Ibex cluster, a high throughput computer system with about 500 computing nodes using Intel Skylake and Cascade Lake CPUs and Nvidia V100 GPUs; and (3) KSL staff scientists, who will provide support, training and consultancy to maximize impact. Through 30 June 2020, up to 15% of these resources will be reserved for fast-tracking competitive COVID-19 proposals through the KAUST Research Computing Allocation Committee.  Thereafter, such proposals remain welcome and will be considered in the standard process.

Applicants can apply for computing allocations using the COVID-19 Project Proposal form. Please submit the form to projects@hpc.kaust.edu.sa. Submitted proposals will be fast-tracked for processing.

Please contact help@hpc.kaust.edu.sa with any inquiries.


Tip of the week: Processing large data sets on Shaheen

As the size of data increases, the simulation workflow is becoming a data motion problem rather than the execution of a compute bound PDE solver. In recent weeks, we have come across many new users who are struggling to move large scale data to-and-from Shaheen for pre/post processing. When the data size reaches TBs per time step, this mode of operation becomes very inefficent. Do you know that you can prepare python based scripts on your workstations and run the same script on Shaheen (after minor edits of the file paths) in batch mode and automatically generate pictures and movies? Most post processing tools like paraview, visit and tecplot offer this feature. If you are interested in a more in-depth tutorial, please attend HPC101 session on September 17. Alternatively, you can also request a 1-1 training session by emailing us at help@hpc.kaust.edu.sa

More info on HPC101 Training session: 



Follow us on Twitter

Follow all the latest news on HPC within the Supercomputing Lab and at KAUST, on Twitter @KAUST_HPC.

Previous Announcements


Previous Tips