arXiv subjects

Gianluca Palermo

Publications and source records attributed to Gianluca Palermo.

26 records · Page 2Linked to original sources

arXiv2021

EVEREST: A design environment for extreme-scale big data analytics on heterogeneous platforms

High-Performance Big Data Analytics (HPDA) applications are characterized by huge volumes of distributed and heterogeneous data that require efficient computation for knowledge extraction and decision making. Designers are moving towards a tight integration of computing systems combining HPC, Cloud, and IoT solutions with artificial intelligence (AI). Matching the application and data requirements with the characteristics of the underlying hardware is a key element to improve the predictions thanks to high performance and better use of resources. We present EVEREST, a novel H2020 project started on October 1st, 2020 that aims at developing a holistic environment for the co-design of HPDA applications on heterogeneous, distributed, and secure platforms. EVEREST focuses on programmability issues through a data-driven design approach, the use of hardware-accelerated AI, and an efficient runtime monitoring with virtualization support. In the different stages, EVEREST combines state-of-the-art programming models, emerging communication standards, and novel domain-specific extensions. We describe the EVEREST approach and the use cases that drive our research.

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arXiv2020

A Collaborative Filtering Approach for the Automatic Tuning of Compiler Optimisations

Selecting the right compiler optimisations has a severe impact on programs' performance. Still, the available optimisations keep increasing, and their effect depends on the specific program, making the task human intractable. Researchers proposed several techniques to search in the space of compiler optimisations. Some approaches focus on finding better search algorithms, while others try to speed up the search by leveraging previously collected knowledge. The possibility to effectively reuse previous compilation results inspired us toward the investigation of techniques derived from the Recommender Systems field. The proposed approach exploits previously collected knowledge and improves its characterisation over time. Differently from current state-of-the-art solutions, our approach is not based on performance counters but relies on Reaction Matching, an algorithm able to characterise programs looking at how they react to different optimisation sets. The proposed approach has been validated using two widely used benchmark suites, cBench and PolyBench, including 54 different programs. Our solution, on average, extracted 90% of the available performance improvement 10 iterations before current state-of-the-art solutions, which corresponds to 40% fewer compilations and performance tests to perform.

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arXiv2019

The ANTAREX Domain Specific Language for High Performance Computing

The ANTAREX project relies on a Domain Specific Language (DSL) based on Aspect Oriented Programming (AOP) concepts to allow applications to enforce extra functional properties such as energy-efficiency and performance and to optimize Quality of Service (QoS) in an adaptive way. The DSL approach allows the definition of energy-efficiency, performance, and adaptivity strategies as well as their enforcement at runtime through application autotuning and resource and power management. In this paper, we present an overview of the key outcome of the project, the ANTAREX DSL, and some of its capabilities through a number of examples, including how the DSL is applied in the context of the project use cases.

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arXiv2019

An Efficient Monte Carlo-based Probabilistic Time-Dependent Routing Calculation Targeting a Server-Side Car Navigation System

Incorporating speed probability distribution to the computation of the route planning in car navigation systems guarantees more accurate and precise responses. In this paper, we propose a novel approach for dynamically selecting the number of samples used for the Monte Carlo simulation to solve the Probabilistic Time-Dependent Routing (PTDR) problem, thus improving the computation efficiency. The proposed method is used to determine in a proactive manner the number of simulations to be done to extract the travel-time estimation for each specific request while respecting an error threshold as output quality level. The methodology requires a reduced effort on the application development side. We adopted an aspect-oriented programming language (LARA) together with a flexible dynamic autotuning library (mARGOt) respectively to instrument the code and to take tuning decisions on the number of samples improving the execution efficiency. Experimental results demonstrate that the proposed adaptive approach saves a large fraction of simulations (between 36% and 81%) with respect to a static approach while considering different traffic situations, paths and error requirements. Given the negligible runtime overhead of the proposed approach, it results in an execution-time speedup between 1.5x and 5.1x. This speedup is reflected at infrastructure-level in terms of a reduction of around 36% of the computing resources needed to support the whole navigation pipeline.

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arXiv2019

On-line Application Autotuning Exploiting Ensemble Models

Application autotuning is a promising path investigated in literature to improve computation efficiency. In this context, the end-users define high-level requirements and an autonomic manager is able to identify and seize optimization opportunities by leveraging trade-offs between extra-functional properties of interest, such as execution time, power consumption or quality of results. The relationship between an application configuration and the extra-functional properties might depend on the underlying architecture, on the system workload and on features of the current input. For these reasons, autotuning frameworks rely on application knowledge to drive the adaptation strategies. The autotuning task is typically done offline because having it in production requires significant effort to reduce its overhead. In this paper, we enhance a dynamic autotuning framework with a module for learning the application knowledge during the production phase, in a distributed fashion. We leverage two strategies to limit the overhead introduced at the production phase. On one hand, we use a scalable infrastructure capable of leveraging the parallelism of the underlying platform. On the other hand, we use ensemble models to speed up the predictive capabilities, while iteratively gathering production data. Experimental results on synthetic applications and on a use case show how the proposed approach is able to learn the application knowledge, by exploring a small fraction of the design space.

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arXiv2019

Exploiting OpenMP & OpenACC to Accelerate a Molecular Docking Mini-App in Heterogeneous HPC Nodes

In drug discovery, molecular docking is the task in charge of estimating the position of a molecule when interacting with the docking site. This task is usually used to perform screening of a large library of molecules, in the early phase of the process. Given the amount of candidate molecules and the complexity of the application, this task is usually performed using High-Performance Computing (HPC) platforms. In modern HPC systems, heterogeneous platforms provide a better throughput with respect to homogeneous platforms. In this work, we ported and optimized a molecular docking application to a heterogeneous system, with one or more GPU accelerators, leveraging a hybrid OpenMP and OpenACC approach. We prove that our approach has a better exploitation of the node compared to pure CPU/GPU data splitting approaches, reaching a throughput improvement up to 36% while considering the same computing node.

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arXiv2019

Tunable Approximations to Control Time-to-Solution in an HPC Molecular Docking Mini-App

The drug discovery process involves several tasks to be performed in vivo, in vitro and in silico. Molecular docking is a task typically performed in silico. It aims at finding the three-dimensional pose of a given molecule when it interacts with the target protein binding site. This task is often done for virtual screening a huge set of molecules to find the most promising ones, which will be forwarded to the later stages of the drug discovery process. Given the huge complexity of the problem, molecular docking cannot be solved by exploring the entire space of the ligand poses. State-of-the-art approaches face the problem by sampling the space of the ligand poses to generate results in a reasonable time budget. In this work, we improve the geometric approach to molecular docking by introducing tunable approximations. In particular, we analyzed and enriched the original implementation with tunable software knobs to explore and control the performance-accuracy tradeoffs. We modeled time-to-solution of the virtual screening task as a function of software knobs, input data features, and available computational resources. Therefore, the application can autotune its configuration according to a user-defined time budget. We used a Mini-App derived by LiGenDock - a state-of-the-art molecular docking application - to validate the proposed approach. We run the enhanced Mini-App on an HPC system by using a very large database of pockets and ligands. The proposed approach exposes a time-to-solution interval spanning more than one order of magnitude with accuracy degradation up to 30%, more in general providing different accuracy levels according to the needs of the virtual screening campaign.

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arXiv2018

A Survey on Compiler Autotuning using Machine Learning

Since the mid-1990s, researchers have been trying to use machine-learning based approaches to solve a number of different compiler optimization problems. These techniques primarily enhance the quality of the obtained results and, more importantly, make it feasible to tackle two main compiler optimization problems: optimization selection (choosing which optimizations to apply) and phase-ordering (choosing the order of applying optimizations). The compiler optimization space continues to grow due to the advancement of applications, increasing number of compiler optimizations, and new target architectures. Generic optimization passes in compilers cannot fully leverage newly introduced optimizations and, therefore, cannot keep up with the pace of increasing options. This survey summarizes and classifies the recent advances in using machine learning for the compiler optimization field, particularly on the two major problems of (1) selecting the best optimizations and (2) the phase-ordering of optimizations. The survey highlights the approaches taken so far, the obtained results, the fine-grain classification among different approaches and finally, the influential papers of the field.

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