Shell Programming in Unix, Linux and OS X: the Fourth Edition of Unix
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A Postgresql Development Environment
A PostgreSQL development environment Peter Eisentraut [email protected] @petereisentraut The plan tooling building testing developing documenting maintaining Tooling: Git commands Useful commands: git add (-N, -p) git ls-files git am git format-patch git apply git grep (-i, -w, -W) git bisect git log (-S, --grep) git blame -w git merge git branch (--contains, -d, -D, --list, git pull -m, -r) git push (-n, -f, -u) git checkout (file, branch, -b) git rebase git cherry-pick git reset (--hard) git clean (-f, -d, -x, -n) git show git commit (--amend, --reset, -- git status fixup, -a) git stash git diff git tag Tooling: Git configuration [diff] colorMoved = true colorMovedWS = allow-indentation-change [log] date = local [merge] conflictStyle = diff3 [rebase] autosquash = true [stash] showPatch = true [tag] sort = version:refname [versionsort] suffix = "_BETA" suffix = "_RC" Tooling: Git aliases [alias] check-whitespace = \ !git diff-tree --check $(git hash-object -t tree /dev/null) HEAD ${1:-$GIT_PREFIX} find = !git ls-files "*/$1" gtags = !git ls-files | gtags -f - st = status tags = tag -l wdiff = diff --color-words=[[:alnum:]]+ wshow = show --color-words Tooling: Git shell integration zsh vcs_info Tooling: Editor Custom settings for PostgreSQL sources exist. Advanced options: whitespace checking automatic spell checking (flyspell) automatic building (flycheck, flymake) symbol lookup ("tags") Tooling: Shell settings https://superuser.com/questions/521657/zsh-automatically-set-environment-variables-for-a-directory zstyle ':chpwd:profiles:/*/*/devel/postgresql(|/|/*)' profile postgresql chpwd_profile_postgresql() { chpwd_profile_default export EMAIL="[email protected]" alias nano='nano -T4' LESS="$LESS -x4" } Tooling — Summary Your four friends: vcs editor shell terminal Building: How to run configure ./configure -C/--config-cache --prefix=$(cd . -
Shell Scripting with Bash
Introduction to Shell Scripting with Bash Charles Jahnke Research Computing Services Information Services & Technology Topics for Today ● Introductions ● Basic Terminology ● How to get help ● Command-line vs. Scripting ● Variables ● Handling Arguments ● Standard I/O, Pipes, and Redirection ● Control Structures (loops and If statements) ● SCC Job Submission Example Research Computing Services Research Computing Services (RCS) A group within Information Services & Technology at Boston University provides computing, storage, and visualization resources and services to support research that has specialized or highly intensive computation, storage, bandwidth, or graphics requirements. Three Primary Services: ● Research Computation ● Research Visualization ● Research Consulting and Training Breadth of Research on the Shared Computing Cluster (SCC) Me ● Research Facilitator and Administrator ● Background in biomedical engineering, bioinformatics, and IT systems ● Offices on both CRC and BUMC ○ Most of our staff on the Charles River Campus, some dedicated to BUMC ● Contact: [email protected] You ● Who has experience programming? ● Using Linux? ● Using the Shared Computing Cluster (SCC)? Basic Terminology The Command-line The line on which commands are typed and passed to the shell. Username Hostname Current Directory [username@scc1 ~]$ Prompt Command Line (input) The Shell ● The interface between the user and the operating system ● Program that interprets and executes input ● Provides: ○ Built-in commands ○ Programming control structures ○ Environment -
Lecture 7 Network Management and Debugging
SYSTEM ADMINISTRATION MTAT.08.021 LECTURE 7 NETWORK MANAGEMENT AND DEBUGGING Prepared By: Amnir Hadachi and Artjom Lind University of Tartu, Institute of Computer Science [email protected] / [email protected] 1 LECTURE 7: NETWORK MGT AND DEBUGGING OUTLINE 1.Intro 2.Network Troubleshooting 3.Ping 4.SmokePing 5.Trace route 6.Network statistics 7.Inspection of live interface activity 8.Packet sniffers 9.Network management protocols 10.Network mapper 2 1. INTRO 3 LECTURE 7: NETWORK MGT AND DEBUGGING INTRO QUOTE: Networks has tendency to increase the number of interdependencies among machine; therefore, they tend to magnify problems. • Network management tasks: ✴ Fault detection for networks, gateways, and critical servers ✴ Schemes for notifying an administrator of problems ✴ General network monitoring, to balance load and plan expansion ✴ Documentation and visualization of the network ✴ Administration of network devices from a central site 4 LECTURE 7: NETWORK MGT AND DEBUGGING INTRO Network Size 160 120 80 40 Management Procedures 0 AUTOMATION ILLUSTRATION OF NETWORK GROWTH VS MGT PROCEDURES AUTOMATION 5 LECTURE 7: NETWORK MGT AND DEBUGGING INTRO • Network: • Subnets + Routers / switches Time to consider • Automating mgt tasks: • shell scripting source: http://www.eventhelix.com/RealtimeMantra/Networking/ip_routing.htm#.VvjkA2MQhIY • network mgt station 6 2. NETWORK TROUBLES HOOTING 7 LECTURE 7: NETWORK MGT AND DEBUGGING NETWORK TROUBLESHOOTING • Many tools are available for debugging • Debugging: • Low-level (e.g. TCP/IP layer) • high-level (e.g. DNS, NFS, and HTTP) • This section progress: ping trace route GENERAL ESSENTIAL TROUBLESHOOTING netstat TOOLS STRATEGY nmap tcpdump … 8 LECTURE 7: NETWORK MGT AND DEBUGGING NETWORK TROUBLESHOOTING • Before action, principle to consider: ✴ Make one change at a time ✴ Document the situation as it was before you got involved. -
Version 7.8-Systemd
Linux From Scratch Version 7.8-systemd Created by Gerard Beekmans Edited by Douglas R. Reno Linux From Scratch: Version 7.8-systemd by Created by Gerard Beekmans and Edited by Douglas R. Reno Copyright © 1999-2015 Gerard Beekmans Copyright © 1999-2015, Gerard Beekmans All rights reserved. This book is licensed under a Creative Commons License. Computer instructions may be extracted from the book under the MIT License. Linux® is a registered trademark of Linus Torvalds. Linux From Scratch - Version 7.8-systemd Table of Contents Preface .......................................................................................................................................................................... vii i. Foreword ............................................................................................................................................................. vii ii. Audience ............................................................................................................................................................ vii iii. LFS Target Architectures ................................................................................................................................ viii iv. LFS and Standards ............................................................................................................................................ ix v. Rationale for Packages in the Book .................................................................................................................... x vi. Prerequisites -
Software Release Notes for Lucent Omc-H Release
OMC-H 7.3 R ELEASE NOTES SOFTWARE RELEASE NOTES FOR LUCENT OMC-H R ELEASE 7.3 (I N SUPPORT OF USDS 6.0 SU3, USDS 6.0) FILE: 06.cust_srn_omch_7.3.1.5 Page 1 of 17 Issue 1.0 Dated 2007-01-12 Alcatel-Lucent Proprietary Base lined OMC-H 7.3 R ELEASE NOTES TABLE OF CONTENTS 1. INTRODUCTION ............................................................................................................................. 3 1.1 RELEASE INFORMATION ........................................................................................................ 3 1.2 RELEASE NOTES OVERVIEW ................................................................................................ 4 2 SYSTEM REQUIREMENTS .............................................................................................................. 5 2.1 HARDWARE REQUIREMENTS ............................................................................................... 5 2.2 SOFTWARE REQUIREMENTS ................................................................................................ 5 2.3 PRE-INSTALLATION REQUIREMENTS ................................................................................ 5 3 RELEASE DESCRIPTION ................................................................................................................. 6 3.1 NEW FEATURES ........................................................................................................................ 6 3.2 ENHANCEMENTS ..................................................................................................................... -
Oracle Solaris 11 Implementation and Operations Procedure Guide
Oracle Solaris 11 Implementation and Operations Procedure Guide December 2016 Edition 1.0 Fujitsu Limited Let's Use Oracle Solaris 11 (Build and Operations Procedure Guide) About This Document Purpose - This document presents procedures for building and operating Oracle Solaris 11. To use this procedure guide effectively, read it together with the Oracle Solaris 11 Implementation and Operations Guide , a separate volume. Oracle Solaris 11 Implementation and Operations Guide . http://www.fujitsu.com/global/products/computing/servers/unix/sparc/downloads/documents/ Notes - This document presents procedures that use Oracle Solaris 11.3. - There may be differences from the log values written in this procedure guide, depending on the environment. - "Oracle Solaris" may be abbreviated to "Solaris". - Fujitsu M10 is sold as SPARC M10 Systems by Fujitsu in Japan. Fujitsu M10 and SPARC M10 Systems are identical products. Positioning of documents Oracle Solaris 11 Implementation and Operations Guide Oracle Solaris 11 Overview and Design Guide Oracle Solaris 11 Implementation and Operations Procedure Guide Design Install Operate Terms of Use Copyrights, trademarks, and other intellectual property rights - The contents (text, images, audio, etc.) are protected by copyrights, trademarks, and other intellectual property rights. The contents can be printed or downloaded for personal use only. The contents may not be otherwise used (reused on a personal webpage, uploaded to another server, etc.) without the prior permission of Fujitsu or the rights holder. Limitation of warranties - Fujitsu does not warrant the accuracy, merchantability, fitness of use, etc. of the contents. Fujitsu assumes no liability for any damages arising from use of the contents. The contents may be modified or deleted without any prior notice. -
Bash Crash Course + Bc + Sed + Awk∗
Bash Crash course + bc + sed + awk∗ Andrey Lukyanenko, CSE, Aalto University Fall, 2011 There are many Unix shell programs: bash, sh, csh, tcsh, ksh, etc. The comparison of those can be found on-line 1. We will primary focus on the capabilities of bash v.4 shell2. 1. Each bash script can be considered as a text file which starts with #!/bin/bash. It informs the editor or interpretor which tries to open the file, what to do with the file and how should it be treated. The special character set in the beginning #! is a magic number; check man magic and /usr/share/file/magic on existing magic numbers if interested. 2. Each script (assume you created “scriptname.sh file) can be invoked by command <dir>/scriptname.sh in console, where <dir> is absolute or relative path to the script directory, e.g., ./scriptname.sh for current directory. If it has #! as the first line it will be invoked by this command, otherwise it can be called by command bash <dir>/scriptname.sh. Notice: to call script as ./scriptname.sh it has to be executable, i.e., call command chmod 555 scriptname.sh before- hand. 3. Variable in bash can be treated as integers or strings, depending on their value. There are set of operations and rules available for them. For example: #!/bin/bash var1=123 # Assigns value 123 to var1 echo var1 # Prints ’var1’ to output echo $var1 # Prints ’123’ to output var2 =321 # Error (var2: command not found) var2= 321 # Error (321: command not found) var2=321 # Correct var3=$var2 # Assigns value 321 from var2 to var3 echo $var3 # Prints ’321’ to output -
Shell Script Getopts Example
Shell Script Getopts Example Gail is constrainedly cryoscopic after delegable Hilbert sag his parcloses illuminatingly. Gonzales often tootle irresistibly when tripersonal Giordano discomposed dissonantly and buffer her Barbarossa. Robert misdraws rompishly. Find that getopts script example we use later will contain whitespace separation with command Instantly share code, notes, and snippets. OPTARG is set to the period character found. They cease in many cases unneeded and brief fact that cartoon always press them its just like matter of personal coding style. File or directory or found. Operator precedence is used when there within five is more arguments. Typically, shell scripts use getopts to parse arguments passed to them. There did many ways to against your remedy environment. Nothing gets printed when no command line options are provided. The return status is zero unless an outcome is encountered while determining the name avid the he directory within an invalid option is supplied. The exit code will be success failure. Log in charge use details from one require these accounts. How does log lumber and cpu usage by an application? Now consider running it bore an unsupported option. No need only pass the positional parameters through to borrow external program. How can I check took a directory exists in a candy shell script? What extent its purpose? When optional, the fashion can buckle on led off additional functionality, as ugly a boolean option. In those cases, it contains a pointer to that parameter. How environment check ride a variable is set to Bash? Connect and deploy knowledge write a single location that is structured and fatigue to search. -
Unix (And Linux)
AWK....................................................................................................................................4 BC .....................................................................................................................................11 CHGRP .............................................................................................................................16 CHMOD.............................................................................................................................19 CHOWN ............................................................................................................................26 CP .....................................................................................................................................29 CRON................................................................................................................................34 CSH...................................................................................................................................36 CUT...................................................................................................................................71 DATE ................................................................................................................................75 DF .....................................................................................................................................79 DIFF ..................................................................................................................................84 -
Research Computing and Cyberinfrastructure Team
Research Computing and CyberInfrastructure team ! Working with the Linux Shell on the CWRU HPC 31 January 2019 7 February 2019 ! Presenter Emily Dragowsky KSL Data Center RCCI Team: Roger Bielefeld, Mike Warfe, Hadrian Djohari! Brian Christian, Emily Dragowsky, Jeremy Fondran, Cal Frye,! Sanjaya Gajurel, Matt Garvey, Theresa Griegger, Cindy Martin, ! Sean Maxwell, Jeno Mozes, Nasir Yilmaz, Lee Zickel Preface: Prepare your environment • User account ! # .bashrc ## cli essentials ! if [ -t 1 ] then bind '"\e[A": history-search-backward' bind '"\e[B": history-search-forward' bind '"\eOA": history-search-backward' bind '"\eOB": history-search-forward' fi ! This is too useful to pass up! Working with Linux • Preamble • Intro Session Linux Review: Finding our way • Files & Directories: Sample work flow • Shell Commands • Pipes & Redirection • Scripting Foundations • Shell & environment variables • Control Structures • Regular expressions & text manipulation • Recap & Look Ahead Rider Cluster Components ! rider.case.edu ondemand.case.edu University Firewall ! Admin Head Nodes SLURM Science Nodes Master DMZ Resource ! Data Manager Transfer Disk Storage Nodes Batch nodes GPU nodes SMP nodes Running a job: where is it? slide from Hadrian Djohari Storing Data on the HPC table from Nasir Yilmaz How data moves across campus • Buildings on campus are each assigned to a zone. Data connections go from every building to the distribution switch at the center of the zone and from there to the data centers at Kelvin Smith Library and Crawford Hall. slide -
Parallel Processing Here at the School of Statistics
Parallel Processing here at the School of Statistics Charles J. Geyer School of Statistics University of Minnesota http://www.stat.umn.edu/~charlie/parallel/ 1 • batch processing • R package multicore • R package rlecuyer • R package snow • grid engine (CLA) • clusters (MSI) 2 Batch Processing This is really old stuff (from 1975). But not everyone knows it. If you do the following at a unix prompt nohup nice -n 19 some job & where \some job" is replaced by an actual job, then • the job will run in background (because of &). • the job will not be killed when you log out (because of nohup). • the job will have low priority (because of nice -n 19). 3 Batch Processing (cont.) For example, if foo.R is a plain text file containing R commands, then nohup nice -n 19 R CMD BATCH --vanilla foo.R & executes the commands and puts the printout in the file foo.Rout. And nohup nice -n 19 R CMD BATCH --no-restore foo.R & executes the commands, puts the printout in the file foo.Rout, and saves all created R objects in the file .RData. 4 Batch Processing (cont.) nohup nice -n 19 R CMD BATCH foo.R & is a really bad idea! It reads in all the objects in the file .RData (if one is present) at the beginning. So you have no idea whether the results are reproducible. Always use --vanilla or --no-restore except when debugging. 5 Batch Processing (cont.) This idiom has nothing to do with R. If foo is a compiled C or C++ or Fortran main program that doesn't have command line arguments (or a shell, Perl, Python, or Ruby script), then nohup nice -n 19 foo & runs it. -
Introduction to Unix Part I: the Essentials
Introduction to Unix Part I: The Essentials Frederick J Tan Bioinformatics Research Faculty Carnegie Institution of Washington, Department of Embryology 9 April 2013 Unix, Linux, Ubuntu, Oh My! 2 A Three Hour Tour Part I: The Essentials client-server model, command-line interface, navigation, viewing files, searching, finding help Part II: Special Topics account settings, multi-tasking, programming, installing programs, file systems, system administration 3 The Awesome Power of the Client-Server Model 4 A Tale of Two Interfaces Command Line Graphical Terminal.app, Unix shell Finder.app, Galaxy breadth, cutting-edge discovery, visualization 5 Running Programs Using the Command-Line Interface command-line graphical type in the name of the to run a program program and hit <ENTER> double click on an icon (e.g. bowtie2) type in options after the program, to modify how a click on check boxes, before hitting <ENTER> program operates select from pull-down menus (e.g. bowtie2 --very-sensitive) 6 The Anatomy of a Shell Prompt workshop@ubuntu:~$ The text in between the colon (:) The $ symbol indicates The symbol and the dollar sign ($) indicates that the server is ready to indicates where what what directory you are in. perform a command. you type in will appear. /home/workshop$ $ ssh [email protected] 7 Task 1: Connect to your server and start top with -i option Start VirtualBox Start Ubuntu Secure SHell $ ssh [email protected] <ENTER> <SPACE> Shell Prompt /home/workshop$ <TAB> Start top -i $ top -i <CTRL> <UP> <DOWN> 8 Task 2: Figure