Spack: a Package Manager for HPC
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Bench - Benchmarking the State-Of- The-Art Task Execution Frameworks of Many- Task Computing
MATRIX: Bench - Benchmarking the state-of- the-art Task Execution Frameworks of Many- Task Computing Thomas Dubucq, Tony Forlini, Virgile Landeiro Dos Reis, and Isabelle Santos Illinois Institute of Technology, Chicago, IL, USA {tdubucq, tforlini, vlandeir, isantos1}@hawk.iit.edu Stanford University. Finally HPX is a general purpose C++ Abstract — Technology trends indicate that exascale systems will runtime system for parallel and distributed applications of any have billion-way parallelism, and each node will have about three scale developed by Louisiana State University and Staple is a orders of magnitude more intra-node parallelism than today’s framework for developing parallel programs from Texas A&M. peta-scale systems. The majority of current runtime systems focus a great deal of effort on optimizing the inter-node parallelism by MATRIX is a many-task computing job scheduling system maximizing the bandwidth and minimizing the latency of the use [3]. There are many resource managing systems aimed towards of interconnection networks and storage, but suffer from the lack data-intensive applications. Furthermore, distributed task of scalable solutions to expose the intra-node parallelism. Many- scheduling in many-task computing is a problem that has been task computing (MTC) is a distributed fine-grained paradigm that considered by many research teams. In particular, Charm++ [4], aims to address the challenges of managing parallelism and Legion [5], Swift [6], [10], Spark [1][2], HPX [12], STAPL [13] locality of exascale systems. MTC applications are typically structured as direct acyclic graphs of loosely coupled short tasks and MATRIX [11] offer solutions to this problem and have with explicit input/output data dependencies. -
Creating Rpms Guide
CREATING RPMS (Student version) v1.0 Featuring 36 pages of lecture and a 48 page lab exercise This docu m e n t serves two purpose s: 1. Representative sample to allow evaluation of our courseware manuals 2. Make available high quality RPM documentation to Linux administrators A bout this m aterial : The blue background you see simulates the custom paper that all Guru Labs course w are is printed on. This student version does not contain the instructor notes and teaching tips present in the instructor version. For more information on all the features of our unique layout, see: http://ww w . g urulabs.co m /courseware/course w are_layout.php For more freely available Guru Labs content (and the latest version of this file), see: http://www.gurulabs.co m/goodies/ This sample validated on: Red Hat Enterprise Linux 4 & Fedora Core v3 SUSE Linux Enterprise Server 9 & SUSE Linux Professional 9.2 About Guru Labs: Guru Labs is a Linux training company started in 199 9 by Linux experts to produce the best Linux training and course w are available. For a complete list, visit our website at: http://www.gurulabs.co m/ This work is copyrighted Guru Labs, L.C. 2005 and is licensed under the Creative Common s Attribution- NonCom mer cial- NoDerivs License. To view a copy of this license, visit http://creativecom m o n s.org/licenses/by- nc- nd/2.0/ or send a letter to Creative Commons, 559 Nathan Abbott Way, Stanford, California 943 0 5, USA. Guru Labs 801 N 500 W Ste 202 Bountiful, UT 84010 Ph: 801-298-5227 WWW.GURULABS.COM Objectives: • Understand -
Practical C Programming, 3Rd Edition
Practical C Programming, 3rd Edition By Steve Oualline 3rd Edition August 1997 ISBN: 1-56592-306-5 This new edition of "Practical C Programming" teaches users not only the mechanics or programming, but also how to create programs that are easy to read, maintain, and debug. It features more extensive examples and an introduction to graphical development environments. Programs conform to ANSI C. 0 TEAM FLY PRESENTS Table of Contents Preface How This Book is Organized Chapter by Chapter Notes on the Third Edition Font Conventions Obtaining Source Code Comments and Questions Acknowledgments Acknowledgments to the Third Edition I. Basics 1. What Is C? How Programming Works Brief History of C How C Works How to Learn C 2. Basics of Program Writing Programs from Conception to Execution Creating a Real Program Creating a Program Using a Command-Line Compiler Creating a Program Using an Integrated Development Environment Getting Help on UNIX Getting Help in an Integrated Development Environment IDE Cookbooks Programming Exercises 3. Style Common Coding Practices Coding Religion Indentation and Code Format Clarity Simplicity Summary 4. Basic Declarations and Expressions Elements of a Program Basic Program Structure Simple Expressions Variables and Storage 1 TEAM FLY PRESENTS Variable Declarations Integers Assignment Statements printf Function Floating Point Floating Point Versus Integer Divide Characters Answers Programming Exercises 5. Arrays, Qualifiers, and Reading Numbers Arrays Strings Reading Strings Multidimensional Arrays Reading Numbers Initializing Variables Types of Integers Types of Floats Constant Declarations Hexadecimal and Octal Constants Operators for Performing Shortcuts Side Effects ++x or x++ More Side-Effect Problems Answers Programming Exercises 6. -
Embedded Linux Systems with the Yocto Project™
OPEN SOURCE SOFTWARE DEVELOPMENT SERIES Embedded Linux Systems with the Yocto Project" FREE SAMPLE CHAPTER SHARE WITH OTHERS �f, � � � � Embedded Linux Systems with the Yocto ProjectTM This page intentionally left blank Embedded Linux Systems with the Yocto ProjectTM Rudolf J. Streif Boston • Columbus • Indianapolis • New York • San Francisco • Amsterdam • Cape Town Dubai • London • Madrid • Milan • Munich • Paris • Montreal • Toronto • Delhi • Mexico City São Paulo • Sidney • Hong Kong • Seoul • Singapore • Taipei • Tokyo Many of the designations used by manufacturers and sellers to distinguish their products are claimed as trademarks. Where those designations appear in this book, and the publisher was aware of a trademark claim, the designations have been printed with initial capital letters or in all capitals. The author and publisher have taken care in the preparation of this book, but make no expressed or implied warranty of any kind and assume no responsibility for errors or omissions. No liability is assumed for incidental or consequential damages in connection with or arising out of the use of the information or programs contained herein. For information about buying this title in bulk quantities, or for special sales opportunities (which may include electronic versions; custom cover designs; and content particular to your business, training goals, marketing focus, or branding interests), please contact our corporate sales depart- ment at [email protected] or (800) 382-3419. For government sales inquiries, please contact [email protected]. For questions about sales outside the U.S., please contact [email protected]. Visit us on the Web: informit.com Cataloging-in-Publication Data is on file with the Library of Congress. -
Getting Started with Astropy
Astropy Documentation Release 0.2.5 The Astropy Developers October 28, 2013 CONTENTS i ii Astropy Documentation, Release 0.2.5 Astropy is a community-driven package intended to contain much of the core functionality and some common tools needed for performing astronomy and astrophysics with Python. CONTENTS 1 Astropy Documentation, Release 0.2.5 2 CONTENTS Part I User Documentation 3 Astropy Documentation, Release 0.2.5 Astropy at a glance 5 Astropy Documentation, Release 0.2.5 6 CHAPTER ONE OVERVIEW Here we describe a broad overview of the Astropy project and its parts. 1.1 Astropy Project Concept The “Astropy Project” is distinct from the astropy package. The Astropy Project is a process intended to facilitate communication and interoperability of python packages/codes in astronomy and astrophysics. The project thus en- compasses the astropy core package (which provides a common framework), all “affiliated packages” (described below in Affiliated Packages), and a general community aimed at bringing resources together and not duplicating efforts. 1.2 astropy Core Package The astropy package (alternatively known as the “core” package) contains various classes, utilities, and a packaging framework intended to provide commonly-used astronomy tools. It is divided into a variety of sub-packages, which are documented in the remainder of this documentation (see User Documentation for documentation of these components). The core also provides this documentation, and a variety of utilities that simplify starting other python astron- omy/astrophysics packages. As described in the following section, these simplify the process of creating affiliated packages. 1.3 Affiliated Packages The Astropy project includes the concept of “affiliated packages.” An affiliated package is an astronomy-related python package that is not part of the astropy core source code, but has requested to be included in the Astropy project. -
Adaptive Data Migration in Load-Imbalanced HPC Applications
Louisiana State University LSU Digital Commons LSU Doctoral Dissertations Graduate School 10-16-2020 Adaptive Data Migration in Load-Imbalanced HPC Applications Parsa Amini Louisiana State University and Agricultural and Mechanical College Follow this and additional works at: https://digitalcommons.lsu.edu/gradschool_dissertations Part of the Computer Sciences Commons Recommended Citation Amini, Parsa, "Adaptive Data Migration in Load-Imbalanced HPC Applications" (2020). LSU Doctoral Dissertations. 5370. https://digitalcommons.lsu.edu/gradschool_dissertations/5370 This Dissertation is brought to you for free and open access by the Graduate School at LSU Digital Commons. It has been accepted for inclusion in LSU Doctoral Dissertations by an authorized graduate school editor of LSU Digital Commons. For more information, please [email protected]. ADAPTIVE DATA MIGRATION IN LOAD-IMBALANCED HPC APPLICATIONS A Dissertation Submitted to the Graduate Faculty of the Louisiana State University and Agricultural and Mechanical College in partial fulfillment of the requirements for the degree of Doctor of Philosophy in The Department of Computer Science by Parsa Amini B.S., Shahed University, 2013 M.S., New Mexico State University, 2015 December 2020 Acknowledgments This effort has been possible, thanks to the involvement and assistance of numerous people. First and foremost, I thank my advisor, Dr. Hartmut Kaiser, who made this journey possible with their invaluable support, precise guidance, and generous sharing of expertise. It has been a great privilege and opportunity for me be your student, a part of the STE||AR group, and the HPX development effort. I would also like to thank my mentor and former advisor at New Mexico State University, Dr. -
CERN R&D on Spack and the Turnkey Stack
CERN R&D on Spack and the Turnkey Stack HSF Software Workshop - 2020/11/19 Valentin Volkl (CERN), Key4hep Software Group Thanks to Andre Sailer, Pere Mato, Ben Morgan for use of Slides Valentin Volkl: Key4HEP & Spack Table of Contents ● Key4HEP - Introduction and motivation ● The Spack package manager ● Technical considerations ● Deployment to CVMFS ● Workflow -Spack for Development Valentin Volkl: Key4HEP & Spack 2 Dependency Graph of Key4HEP Stack Experiment-specific Packages Valentin Volkl: Key4HEP & Spack 3 Dependency Graph of Key4HEP stack Experiment-specific Packages + HEP-specific packages Valentin Volkl: Key4HEP & Spack 4 Dependency Graph of Key4HEP stack Experiment-specific Packages + HEP-specific Packages + General Purpose Libraries Valentin Volkl: Key4HEP & Spack 5 Requirements for a Build System [ ] Need to be able to scale to a typical experiment software stack [ ] Combinatorics of multiple platforms, versions, Release/Debug ... [ ] Easy deployment to CVMFS [ ] Allow local builds independent of central CVMFS installations [ ] Support software development usecases The KEY4HEP stack contains some 300 packages ● 60 Experiment-specific ● 50 HEP-specific ● 200 System/General Purpose 14 GB install size, some 6h to build on single 4-core machine Valentin Volkl: Key4HEP & Spack 6 Key4HEP ● Future detector studies critically rely on well-maintained software stacks to model detector concepts and to understand a detector’s limitations and physics reach ● We have a scattered landscape of specific software tools on the one hand and integrated -
Opensource Software in Mac OS X V. Zhhuta
Foss Lviv 2013 191 - Linux VM з Wordpress на Azure під’єднано до SQL-бази в приватному центрі обробки даних. Як бачимо, бізнес Microsoft вже дуже сильно зав'язаний на Open Source! Далі в доповіді будуть розглянуті подробиці інтероперабельності платформ з Linux Server, Apache Hadoop, Java, PHP, Node.JS, MongoDb, і наостанок дізнаємося про цікаві Open Source-розробки Microsoft Research. OpenSource Software in Mac OS X V. Zhhuta UK2 LImIted t/a VPS.NET, [email protected] Max OS X stem from Unix: bSD. It contains a lot of things that are common for Unix systems. Kernel, filesystem and base unix utilities as well as it's own package managers. It's not a secret that Mac OS X has a bSD kernel Darwin. The raw Mac OS X won't provide you with all power of Unix but this could be easily fixed: install package manager. There are 3 package manager: MacPorts, Fink and Homebrew. To dive in OpenSource world of mac os x we would try to install lates version of bash, bash-completion and few other utilities. Where we should start? First of all you need to install on you system dev-tools: Xcode – native development tools that contain GCC and libraries. Next step: bring a GIU – X11 into your system. Starting from Mac OS 10.8 X11 is not included in base-installation and it's need to install Xquartz(http://xquartz.macosforge.org). Now it's time to look closely to package managers MacPorts Site: www.macports.org Latest MacPorts release: 2.1.3 Number of ports: 16740 MacPorts born inside Apple in 2002. -
GNU Guix Cookbook Tutorials and Examples for Using the GNU Guix Functional Package Manager
GNU Guix Cookbook Tutorials and examples for using the GNU Guix Functional Package Manager The GNU Guix Developers Copyright c 2019 Ricardo Wurmus Copyright c 2019 Efraim Flashner Copyright c 2019 Pierre Neidhardt Copyright c 2020 Oleg Pykhalov Copyright c 2020 Matthew Brooks Copyright c 2020 Marcin Karpezo Copyright c 2020 Brice Waegeneire Copyright c 2020 Andr´eBatista Copyright c 2020 Christine Lemmer-Webber Copyright c 2021 Joshua Branson Permission is granted to copy, distribute and/or modify this document under the terms of the GNU Free Documentation License, Version 1.3 or any later version published by the Free Software Foundation; with no Invariant Sections, no Front-Cover Texts, and no Back-Cover Texts. A copy of the license is included in the section entitled \GNU Free Documentation License". i Table of Contents GNU Guix Cookbook ::::::::::::::::::::::::::::::: 1 1 Scheme tutorials ::::::::::::::::::::::::::::::::: 2 1.1 A Scheme Crash Course :::::::::::::::::::::::::::::::::::::::: 2 2 Packaging :::::::::::::::::::::::::::::::::::::::: 5 2.1 Packaging Tutorial:::::::::::::::::::::::::::::::::::::::::::::: 5 2.1.1 A \Hello World" package :::::::::::::::::::::::::::::::::: 5 2.1.2 Setup:::::::::::::::::::::::::::::::::::::::::::::::::::::: 8 2.1.2.1 Local file ::::::::::::::::::::::::::::::::::::::::::::: 8 2.1.2.2 `GUIX_PACKAGE_PATH' ::::::::::::::::::::::::::::::::: 9 2.1.2.3 Guix channels ::::::::::::::::::::::::::::::::::::::: 10 2.1.2.4 Direct checkout hacking:::::::::::::::::::::::::::::: 10 2.1.3 Extended example :::::::::::::::::::::::::::::::::::::::: -
Lmod Or How to Protect Your Sanity from Dependency Hell
Lmod or how to protect your sanity from dependency hell Steffen Müthing Interdisciplinary Center for Scientific Computing Heidelberg University Dune User Meeting Aachen September 26, 2013 1 Steffen Müthing | Lmod or how to protect your sanity from dependency hell ⇒ Have to keep around multiple versions of MPI, BLAS, ParMetis, ALUGrid, UGGrid, . The Issue • DUNE has a number of non-packaged dependencies • Some of those contain libraries that are bound to a compiler / MPI version • You have to support multiple compilers / MPIs • Library developer (we try to be good about this...) • Clusters with different compiler / MPI combinations • Easily switch between release / debug version of MPI (only with dynamic linking) • Use GCC in general, but switch to clang during the “fix compilation errors” stage 2 Steffen Müthing | Lmod or how to protect your sanity from dependency hell The Issue • DUNE has a number of non-packaged dependencies • Some of those contain libraries that are bound to a compiler / MPI version • You have to support multiple compilers / MPIs • Library developer (we try to be good about this...) • Clusters with different compiler / MPI combinations • Easily switch between release / debug version of MPI (only with dynamic linking) • Use GCC in general, but switch to clang during the “fix compilation errors” stage ⇒ Have to keep around multiple versions of MPI, BLAS, ParMetis, ALUGrid, UGGrid, . 2 Steffen Müthing | Lmod or how to protect your sanity from dependency hell Problems • Do I already have ALUGrid for MPICH? • If yes, where on earth did I put it? • Did I really build it with the correct dependencies? • Why does my build fail? Do all the libraries in my nice --with= actually work together? 3 Steffen Müthing | Lmod or how to protect your sanity from dependency hell • Look around for something that’s already there • Distribution package managers (APT, rpm, Portage, MacPorts, homebrew,. -
Xcode Package from App Store
KH Computational Physics- 2016 Introduction Setting up your computing environment Installation • MAC or Linux are the preferred operating system in this course on scientific computing. • Windows can be used, but the most important programs must be installed – python : There is a nice package ”Enthought Python Distribution” http://www.enthought.com/products/edudownload.php – C++ and Fortran compiler – BLAS&LAPACK for linear algebra – plotting program such as gnuplot Kristjan Haule, 2016 –1– KH Computational Physics- 2016 Introduction Software for this course: Essentials: • Python, and its packages in particular numpy, scipy, matplotlib • C++ compiler such as gcc • Text editor for coding (for example Emacs, Aquamacs, Enthought’s IDLE) • make to execute makefiles Highly Recommended: • Fortran compiler, such as gfortran or intel fortran • BLAS& LAPACK library for linear algebra (most likely provided by vendor) • open mp enabled fortran and C++ compiler Useful: • gnuplot for fast plotting. • gsl (Gnu scientific library) for implementation of various scientific algorithms. Kristjan Haule, 2016 –2– KH Computational Physics- 2016 Introduction Installation on MAC • Install Xcode package from App Store. • Install ‘‘Command Line Tools’’ from Apple’s software site. For Mavericks and lafter, open Xcode program, and choose from the menu Xcode -> Open Developer Tool -> More Developer Tools... You will be linked to the Apple page that allows you to access downloads for Xcode. You wil have to register as a developer (free). Search for the Xcode Command Line Tools in the search box in the upper left. Download and install the correct version of the Command Line Tools, for example for OS ”El Capitan” and Xcode 7.2, Kristjan Haule, 2016 –3– KH Computational Physics- 2016 Introduction you need Command Line Tools OS X 10.11 for Xcode 7.2 Apple’s Xcode contains many libraries and compilers for Mac systems. -
Cscope Security Update (RHSA-2009-1101)
cscope security update (RHSA-2009-1101) Original Release Date: June 16, 2009 Last Revised: June 16, 2009 Number: ASA-2009-236 Risk Level: None Advisory Version: 1.0 Advisory Status: Final 1. Overview: cscope is a mature, ncurses-based, C source-code tree browsing tool. Multiple buffer overflow flaws were found in cscope. An attacker could create a specially crafted source code file that could cause cscope to crash or, possibly, execute arbitrary code when browsed with cscope. The Common Vulnerabilities and Exposures project (cve.mitre.org) has assigned the names CVE-2004-2541, CVE-2006-4262, CVE-2009- 0148 and CVE-2009-1577 to these issues. Note: This advisory is specific to RHEL3 and RHEL4. No Avaya system products are vulnerable, as cscope is not installed by default. More information about these vulnerabilities can be found in the security advisory issued by RedHat Linux: · https://rhn.redhat.com/errata/RHSA-2009-1101.html 2. Avaya System Products using RHEL3 or RHEL4 with cscope installed: None 3. Avaya Software-Only Products: Avaya software-only products operate on general-purpose operating systems. Occasionally vulnerabilities may be discovered in the underlying operating system or applications that come with the operating system. These vulnerabilities often do not impact the software-only product directly but may threaten the integrity of the underlying platform. In the case of this advisory Avaya software-only products are not affected by the vulnerability directly but the underlying Linux platform may be. Customers should determine on which Linux operating system the product was installed and then follow that vendor's guidance.