Accelerating epistasis detection on Intel CPUs and discrete GPUs with Intel® Advisor
In this tutorial, we will introduce the Cache-aware Roofline Model (CARM) and expose its basic principles when modelling the performance upper-bounds of Intel CPU and GPU devices. For this purpose, we will rely on epistasis detection as a case-study, which is an important application in bioinformatics. By using DPC++ to deploy the application in Intel Iris Xe MAX (DG1), we will show how Intel® Advisor CARM can be used to detect execution bottlenecks and provide useful hints on which type of optimizations to apply in order to fully exploit both CPU and GPU device capabilities, being actionable for Hybrid CPU+GPU codes design strategy as well.
Using oneAPI tools and Intel Advisor we can obtain essential insight to improve our DPC++ bioinformatics application and obtain speedups on the Intel devices.
Speaker(s)
Aleksandar Ilic
Aleksandar Ilic is an Assistant Professor at the Instituto Superior Técnico (IST), Universidade de Lisboa, and a Senior Researcher of the INESC-ID, Portugal. He contributed to more than 50 scientific publications. His research interests include high-performance and energy-efficient computing and modeling of heterogeneous systems.
Diogo Marques
Diogo Marques is a member of the HPCAS group at Instituto de Engenharia de Sistemas e Computadores R&D (INESC-ID). His research interests include the modeling of multi-core and heterogeneous systems. His work contributed to improve the accuracy of Cache-aware Roofline Model, by proposing the memory metrics and scaled roofs presented in Intel Advisor.
Rafael Campos
Rafael Campos is a young researcher at Instituto de Engenharia de Sistemas e Computadores R&D (INESC-ID), as part of the HPCAS group. His main interests are performance modeling of heterogeneous systems, with focus on performance optimization of bioinformatics applications and roofline modeling of high-performance heterogeneous CPU/GPU systems.
Zakhar Matveev
Zakhar A. Matveev, Principal Engineer, PhD, is a product architect for Intel ® Advisor tool on x86 CPU and Intel GPUs. His focus and professional interests are in the areas of high performance computing, parallel programming, hardware/software co-design and computer graphics.
