KAUST Supercomputing Laboratory Newsletter 8th October 2020

In this newsletter:

  • RCAC meeting
  • KAUST supercomputer Shaheen II joins the fight against COVID-19
  • Tip of the week: Expand Columns of sacct output
  • Follow us on Twitter
  • Previous Announcements
  • Previous Tips


RCAC meeting

The project submission deadline for the next RCAC meeting is 31st October 2020. Please note that the RCAC meetings are held once per month. Projects received on or before the submission deadline will be included in the agenda for the subsequent RCAC meeting. The detailed procedures, updated templates and forms are available here: https://www.hpc.kaust.edu.sa/account-applications


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: Expand Columns of "sacct" output

In one of our previous Tips of the week (https://www.hpc.kaust.edu.sa/tips/some-useful-slurm-commands), we learned that "sacct" command can be used to retrieve detailed information of past jobs. But sometimes, the information of some items is too long and cannot be fitted in the default column width, like the "NodeList" column shown below:

[zhuz@cdl2:~]$sacct -j 15720460 --format=jobid,nnodes,nodelist   
       JobID   NNodes        NodeList
------------ -------- ---------------
15720460           16 nid0[0627,0662+

To fix this issue, we can append "%[width]" to the format item ("nodelist" in this example) to adjust its column width accordingly, like below, and now we can see the full information:

[zhuz@cdl2:~]$sacct -j 15720460 --format=jobid,nnodes,nodelist%90          
       JobID   NNodes                                                                                   NodeList
------------ --------                                      -----------------------------------------------------
15720460           16      nid0[0627,0662,0665,0913,0918,1049,1182,1207,1375,1744,1749,5453,6163-6164,7611-7612] 


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