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Ural-PDC 2016

Preface

This volume contains the papers presented at Ural-PDC 2016: 2nd Ural Work- shop on Parallel, Distributed, and Cloud Computing for Young Scientists (http://ural-pdc.org/2016/) held on October 6, 2016 in Yekaterinburg, Russia.

Ural-PDC is jointly organized by the Krasovskii Institute of Mathematics and Mechanics and the Ural Federal University. The aim of the workshop is to build the community of young researchers who work on modern problems in parallel, distributed, cloud computing, and to provide an academic forum that fosters them to share their ideas and results.

The key topics of interest are high-performance computing, distributed com- puting, cloud computing, Big Data processing, parallel computing education, and various applications of parallel and distributed computing. We have received 18 submissions, each of which has been reviewed by at least three program commit- tee members. The committee decided to accept 12 papers and 2 invited papers;

only 10 of those papers have been included into the present proceedings volume.

Last but not least, we are grateful to our program and organizing committees, who made the workshop possible.

November, 2016 Yekaterinburg, Russia

Andrey Sozykin Elena Akimova Dmitry Ustalov

Copyright c2016 for the individual papers by the papers’ authors. Copying per- mitted for private and academic purposes. This volume is published and copyrighted by its editors. The entire volume is available at http://ceur-ws.org/.

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Table of Contents

Parallel Numerical Methods for Ordinary Differential Equations: a Survey 1 Svyatoslav I. Solodushkin and Irina F. Iumanova

Post-Processing the Results of Metastable States Molecular Dynamics

Simulation . . . 11 Andrey Sozykin, Natalia Neustroeva, Vladimir Baidakov, Sergey Protsenko, Vasiliy Brukhanov, Konstantin Ushenin and Arsenii Krasnobaev

CPU and GPU Parallel Kramers-Klein Calculations . . . 17 Bogdan I. Iaparov, Anton N. Karmatsky and Alexander S. Moskvin

Principles of Computing Resources Planning in Cloud-Based Problem

Solving Environment . . . 22 Kirill Borodulin and Gleb Radchenko

Parallel Left Ventricle Simulation Using the FEniCS Framework . . . 29 Timofei Epanchintsev and Vladimir Zverev

Parallel Algorithms for Solving Linear Systems with Block-Fivediagonal

Matrices on Multi-Core CPU. . . 38 Dmitry Belousov and Elena Akimova

Automatic Launch and Tracking the Computational Simulations with

LiFlow and Sumatra . . . 49 Evgheniy Kuklin and Konstantin Ushenin

Research of Student Prospects on Developing International PhD

Programs in Software Engineering. . . 56 Lyudmila Gadasina, Sergey Voitenko and Alexandr Yurkov

Performance Evaluation of Space Fractional FitzHugh-Nagumo Model:

an Implementation with PETSc Library . . . 66 Nikita Markov, Konstantin Ushenin and Ahmed Hendy

Parallel Algorithm for Natural Neighbor Interpolation . . . 78 Alexander Tsidaev

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Program Committee

Elena Akimova Krasovskii Institute of Mathematics and Mechanics / Ural Federal University

Vitalii Berdyshev Krasovskii Institute of Mathematics and Mechanics Alexei Dukhanov ITMO University

Evgeny Ivanko Krasovskii Institute of Mathematics and Mechanics Iosif Meyerov Lobachevsky State University of Nizhni Novgorod Sergey Pravdin Ghent University

Gleb Radchenko South Ural State University Anastasia Shamakina High Performance Center Stuttgart Oleg Shapovalov Singularis Lab, LLC

Vladislav Shchapov Institute of Continuous Media Mechanics Svyatoslav Solodushkin Ural Federal University

Andrey Sozykin Krasovskii Institute of Mathematics and Mechanics / Ural Federal University

Vladimir Titarev Dorodnicyn Computing Center Vladimir Ustinov Ural Federal University Vladimir Zverev Ural Federal University Mikhail Zymbler South Ural State University

Invited Reviewers

Alexander Bocharov Ural Federal University Constantin Pan Postgres Professional

Organizing Committee

Andrey Sozykin Krasovskii Institute of Mathematics and Mechanics / Ural Federal University

Alexander Bersenev Krasovskii Institute of Mathematics and Mechanics / Ural Federal University

Mikhail Chernoskutov Krasovskii Institute of Mathematics and Mechanics / Ural Federal University

Timofey Epanchintsev Krasovskii Institute of Mathematics and Mechanics / Ural Federal University

Evgeniy Kuklin Krasovskii Institute of Mathematics and Mechanics / Ural Federal University

Natalia Neustroeva Krasovskii Institute of Mathematics and Mechanics / Ural Federal University

Dmitry Ustalov Krasovskii Institute of Mathematics and Mechanics / Ural Federal University

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