Exercise 9: Getting More Advanced with the Command Line
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Unix Command Line; Editors
Unix command line; editors Karl Broman Biostatistics & Medical Informatics, UW–Madison kbroman.org github.com/kbroman @kwbroman Course web: kbroman.org/AdvData My goal in this lecture is to convince you that (a) command-line-based tools are the things to focus on, (b) you need to choose a powerful, universal text editor (you’ll use it a lot), (c) you want to be comfortable and skilled with each. For your work to be reproducible, it needs to be code-based; don’t touch that mouse! Windows vs. Mac OSX vs. Linux Remote vs. Not 2 The Windows operating system is not very programmer-friendly. Mac OSX isn’t either, but under the hood, it’s just unix. Don’t touch the mouse! Open a terminal window and start typing. I do most of my work directly on my desktop or laptop. You might prefer to work remotely on a server, instead. But I can’t stand having any lag in looking at graphics. If you use Windows... Consider Git Bash (or Cygwin) or turn on the Windows subsystem for linux 3 Cygwin is an effort to get Unix command-line tools in Windows. Git Bash combines git (for version control) and bash (the unix shell); it’s simpler to deal with than Cygwin. Linux is now accessible in Windows 10, but you have to enable it. If you use a Mac... Consider Homebrew and iTerm2 Also the XCode command line tools 4 Homebrew is a packaging system; iTerm2 is a Terminal replacement. The XCode command line tools are a must for most unixy things on a Mac. -
Motor Vehicle Division Prestige License Plate Application
For State or County use only: Denied Refund Form MV-9B (Rev. 08-2017) Web and MV Manual Georgia Department of Revenue - Motor Vehicle Division Prestige License Plate Application ______________________________________________________________________________________ Purpose of this Form: This form is to be used by a vehicle owner to request the manufacture of a Special Prestige (Personalized) License Plate. This form should not be used to record a change of ownership, change of address, or change of license plate classification. How to submit this form: After reviewing the MV-9B form instructions, this fully completed form must be submitted to your local County tag office. Please refer to our website at https://mvd.dor.ga.gov/motor/tagoffices/SelectTagOffice.aspx to locate the address(es) for your specific County. OWNER INFORMATION First Name Middle Initial Last Name Suffix Owners’ Full Legal Name: Mailing Address: City: State: Zip: Telephone Number: Owner(s)’ Full Legal Name: First Name Middle Initial Last Name Suffix If secondary Owner(s) are listed Mailing Address: City: State: Zip: Telephone Number: VEHICLE INFORMATION Vehicle Identification Number (VIN): Year: Make: Model: LICENSE PLATE COMBINATION Private Passenger Vehicle (Includes Motor Home and Non-Commercial Trailer) Note: Private passenger vehicles cannot exceed seven (7) letters and/or numbers including spaces. Meaning: ___________________________ Meaning: ___________________________ Meaning: ___________________________ (Required) (Required) (Required) Motorcycle Note: Motorcycles cannot exceed six (6) letters and/or numbers including spaces. Meaning: ___________________________ Meaning: ___________________________ Meaning: ___________________________ (Required) (Required) (Required) Note: No punctuation or symbols are allowed on a license plate. Only letters, numbers, and spaces are allowed. I request that a personal prestige license plate be manufactured. -
Unix/Linux Command Reference
Unix/Linux Command Reference .com File Commands System Info ls – directory listing date – show the current date and time ls -al – formatted listing with hidden files cal – show this month's calendar cd dir - change directory to dir uptime – show current uptime cd – change to home w – display who is online pwd – show current directory whoami – who you are logged in as mkdir dir – create a directory dir finger user – display information about user rm file – delete file uname -a – show kernel information rm -r dir – delete directory dir cat /proc/cpuinfo – cpu information rm -f file – force remove file cat /proc/meminfo – memory information rm -rf dir – force remove directory dir * man command – show the manual for command cp file1 file2 – copy file1 to file2 df – show disk usage cp -r dir1 dir2 – copy dir1 to dir2; create dir2 if it du – show directory space usage doesn't exist free – show memory and swap usage mv file1 file2 – rename or move file1 to file2 whereis app – show possible locations of app if file2 is an existing directory, moves file1 into which app – show which app will be run by default directory file2 ln -s file link – create symbolic link link to file Compression touch file – create or update file tar cf file.tar files – create a tar named cat > file – places standard input into file file.tar containing files more file – output the contents of file tar xf file.tar – extract the files from file.tar head file – output the first 10 lines of file tar czf file.tar.gz files – create a tar with tail file – output the last 10 lines -
What Is UNIX? the Directory Structure Basic Commands Find
What is UNIX? UNIX is an operating system like Windows on our computers. By operating system, we mean the suite of programs which make the computer work. It is a stable, multi-user, multi-tasking system for servers, desktops and laptops. The Directory Structure All the files are grouped together in the directory structure. The file-system is arranged in a hierarchical structure, like an inverted tree. The top of the hierarchy is traditionally called root (written as a slash / ) Basic commands When you first login, your current working directory is your home directory. In UNIX (.) means the current directory and (..) means the parent of the current directory. find command The find command is used to locate files on a Unix or Linux system. find will search any set of directories you specify for files that match the supplied search criteria. The syntax looks like this: find where-to-look criteria what-to-do All arguments to find are optional, and there are defaults for all parts. where-to-look defaults to . (that is, the current working directory), criteria defaults to none (that is, select all files), and what-to-do (known as the find action) defaults to ‑print (that is, display the names of found files to standard output). Examples: find . –name *.txt (finds all the files ending with txt in current directory and subdirectories) find . -mtime 1 (find all the files modified exact 1 day) find . -mtime -1 (find all the files modified less than 1 day) find . -mtime +1 (find all the files modified more than 1 day) find . -
Data Transformation Language (DTL)
DTL Data Transformation Language Phillip H. Sherrod Copyright © 2005-2006 All rights reserved www.dtreg.com DTL is a full programming language built into the DTREG program. DTL makes it easy to generate new variables, transform and combine input variables and select records to be used in the analysis. Contents Contents...................................................................................................................................................3 Introduction .............................................................................................................................................6 Introduction to the DTL Language......................................................................................................6 Using DTL For Data Transformations ....................................................................................................7 The main() function.............................................................................................................................7 Global Variables..................................................................................................................................8 Implicit Global Variables ................................................................................................................8 Explicit Global Variables ................................................................................................................9 Static Global Variables..................................................................................................................11 -
PS TEXT EDIT Reference Manual Is Designed to Give You a Complete Is About Overview of TEDIT
Information Management Technology Library PS TEXT EDIT™ Reference Manual Abstract This manual describes PS TEXT EDIT, a multi-screen block mode text editor. It provides a complete overview of the product and instructions for using each command. Part Number 058059 Tandem Computers Incorporated Document History Edition Part Number Product Version OS Version Date First Edition 82550 A00 TEDIT B20 GUARDIAN 90 B20 October 1985 (Preliminary) Second Edition 82550 B00 TEDIT B30 GUARDIAN 90 B30 April 1986 Update 1 82242 TEDIT C00 GUARDIAN 90 C00 November 1987 Third Edition 058059 TEDIT C00 GUARDIAN 90 C00 July 1991 Note The second edition of this manual was reformatted in July 1991; no changes were made to the manual’s content at that time. New editions incorporate any updates issued since the previous edition. Copyright All rights reserved. No part of this document may be reproduced in any form, including photocopying or translation to another language, without the prior written consent of Tandem Computers Incorporated. Copyright 1991 Tandem Computers Incorporated. Contents What This Book Is About xvii Who Should Use This Book xvii How to Use This Book xvii Where to Go for More Information xix What’s New in This Update xx Section 1 Introduction to TEDIT What Is PS TEXT EDIT? 1-1 TEDIT Features 1-1 TEDIT Commands 1-2 Using TEDIT Commands 1-3 Terminals and TEDIT 1-3 Starting TEDIT 1-4 Section 2 TEDIT Topics Overview 2-1 Understanding Syntax 2-2 Note About the Examples in This Book 2-3 BALANCED-EXPRESSION 2-5 CHARACTER 2-9 058059 Tandem Computers -
A Brief Introduction to Unix-2019-AMS
A Brief Introduction to Linux/Unix – AMS 2019 Pete Pokrandt UW-Madison AOS Systems Administrator [email protected] Twitter @PTH1 Brief Intro to Linux/Unix o Brief History of Unix o Basics of a Unix session o The Unix File System o Working with Files and Directories o Your Environment o Common Commands Brief Intro to Unix (contd) o Compilers, Email, Text processing o Image Processing o The vi editor History of Unix o Created in 1969 by Kenneth Thompson and Dennis Ritchie at AT&T o Revised in-house until first public release 1977 o 1977 – UC-Berkeley – Berkeley Software Distribution (BSD) o 1983 – Sun Workstations produced a Unix Workstation o AT&T unix -> System V History of Unix o Today – two main variants, but blended o System V (Sun Solaris, SGI, Dec OSF1, AIX, linux) o BSD (Old SunOS, linux, Mac OSX/MacOS) History of Unix o It’s been around for a long time o It was written by computer programmers for computer programmers o Case sensitive, mostly lowercase abbreviations Basics of a Unix Login Session o The Shell – the command line interface, where you enter commands, etc n Some common shells Bourne Shell (sh) C Shell (csh) TC Shell (tcsh) Korn Shell (ksh) Bourne Again Shell (bash) [OSX terminal] Basics of a Unix Login Session o Features provided by the shell n Create an environment that meets your needs n Write shell scripts (batch files) n Define command aliases n Manipulate command history n Automatically complete the command line (tab) n Edit the command line (arrow keys in tcsh) Basics of a Unix Login Session o Logging in to a unix -
College Holiday : May 24
Sp21 CIS -18A-41Z: Introduction to Linux/Unix Midterm ONE: Apr 28, Midterm TWO: May 26 , Finals: Jun 21 CENSUS DATE: Apr 19 College Holiday : May 24 Assignment Due dates : Apr 12,19,26, May 3,10,17,25,31, Jun 7,14 No Makeups for any of the above. If you miss, you lose points. Plan accordingly. (Zoom, synchronous M/W, 6PM - 7 PM - Window ) (See http://www.deanza.edu/calendar/finalexams.html) Instructor communicates with student ONLY. • Zoom lectures attendance is not mandatory. Sessions will be recorded and shared in Canvas. • Students need to take midterms and finals -in-the-alloted-time-date. If student does not show up for midterm/finals then 0 points. • FINALS will be on Jun 21, via CANVAS. All times PDT. • If you have questions on assignment grade, email me and we will discuss and resolve it. Any feedback about your work is going to be via email M/W 6 thru 750PM • Do not use Shell programming/Sed/Awk/Perl/Python/Posix expressions for this class in your assignments. Stick to Syllabus. Refer to CANVAS for assignments ! College academic Calendar:Spring 2021 http://deanza.fhda.edu/calendar/springdates.html Instructor Information • Name: Lalitha Krishnamurthy • Email: krishnamurthylalitha at fhda dot edu • Email only in canvas please. • Online Lab Hours: Wednesdays 845pm - 10pm (via Canvas) • Office Hours: Available via synchronous zoom: Mondays 830-930pm PDT. • Lecture timings for CIS18A : M/W 6 PM - 750 PM - Online/Zoom via CANVAS Students, please read the following and plan accordingly • All communication with instructor is via Canvas for assignments and quizzes. -
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 -
Great Lakes Cheat Sheet Less File Prints Content of File Page by Page Guide to General L Inux (Bash) a Nd S Lurm C Ommands Head File Print First 10 Lines of File
Viewing and editing text files cat file Print entire content of file Great Lakes Cheat Sheet less file Prints content of file page by page Guide to general L inux (Bash) and S lurm c ommands head file Print first 10 lines of file tail file Print last 10 lines of file Accessing Great Lakes nano Simple, easy to use text editor Logging in from a terminal (Duo required) vim Minimalist yet powerful text editor ssh uniqname @greatlakes.arc-ts.umich.edu emacs Extensible and customizable text editor Transferring files between Great Lakes and your system scp input uniqname@ greatlakes-xfer.arc-ts.umich.edu: output Advanced file management scp -r i nput uniqname@ greatlakes-xfer.arc-ts.umich.edu:o utput scp uniqname@ greatlakes-xfer.arc-ts.umich.edu:i nput output chmod Change read/write/execute permissions which cmd List the full file path of a command GUI Clients PuTTY SSH client for Windows whereis cmd List all related file paths (binary, source, manual, etc.) of a command WinSCP SCP client for Windows du dir List size of directory and its subdirectories FileZilla FTP client for Windows, Mac, and Linux find Find file in a directory Basic Linux file management Aliases and system variables man command Display the manual page for command alias Create shortcut to command pwd Print out the present working directory env Lists all environment variables ls List the files in the current directory export var = val Create environment variable $ var with value ls -lh Show long, human-readable listing val ls dir List files inside directory dir echo $var Print the value of variable $var rm file Delete file .bashrc File that defines user aliases and variables mkdir dir Create empty directory called dir Input and output redirection rmdir dir Remove empty directory dir $( command) Runs command first, then inserts output to the rm -r dir Remove directory dir and all contents rest of the overall command cd dir Change working directory to dir < Standard input redirection cd . -
07 07 Unixintropart2 Lucio Week 3
Unix Basics Command line tools Daniel Lucio Overview • Where to use it? • Command syntax • What are commands? • Where to get help? • Standard streams(stdin, stdout, stderr) • Pipelines (Power of combining commands) • Redirection • More Information Introduction to Unix Where to use it? • Login to a Unix system like ’kraken’ or any other NICS/ UT/XSEDE resource. • Download and boot from a Linux LiveCD either from a CD/DVD or USB drive. • http://www.puppylinux.com/ • http://www.knopper.net/knoppix/index-en.html • http://www.ubuntu.com/ Introduction to Unix Where to use it? • Install Cygwin: a collection of tools which provide a Linux look and feel environment for Windows. • http://cygwin.com/index.html • https://newton.utk.edu/bin/view/Main/Workshop0InstallingCygwin • Online terminal emulator • http://bellard.org/jslinux/ • http://cb.vu/ • http://simpleshell.com/ Introduction to Unix Command syntax $ command [<options>] [<file> | <argument> ...] Example: cp [-R [-H | -L | -P]] [-fi | -n] [-apvX] source_file target_file Introduction to Unix What are commands? • An executable program (date) • A command built into the shell itself (cd) • A shell program/function • An alias Introduction to Unix Bash commands (Linux) alias! crontab! false! if! mknod! ram! strace! unshar! apropos! csplit! fdformat! ifconfig! more! rcp! su! until! apt-get! cut! fdisk! ifdown! mount! read! sudo! uptime! aptitude! date! fg! ifup! mtools! readarray! sum! useradd! aspell! dc! fgrep! import! mtr! readonly! suspend! userdel! awk! dd! file! install! mv! reboot! symlink! -
Standard TECO (Text Editor and Corrector)
Standard TECO TextEditor and Corrector for the VAX, PDP-11, PDP-10, and PDP-8 May 1990 This manual was updated for the online version only in May 1990. User’s Guide and Language Reference Manual TECO-32 Version 40 TECO-11 Version 40 TECO-10 Version 3 TECO-8 Version 7 This manual describes the TECO Text Editor and COrrector. It includes a description for the novice user and an in-depth discussion of all available commands for more advanced users. General permission to copy or modify, but not for profit, is hereby granted, provided that the copyright notice is included and reference made to the fact that reproduction privileges were granted by the TECO SIG. © Digital Equipment Corporation 1979, 1985, 1990 TECO SIG. All Rights Reserved. This document was prepared using DECdocument, Version 3.3-1b. Contents Preface ............................................................ xvii Introduction ........................................................ xix Preface to the May 1985 edition ...................................... xxiii Preface to the May 1990 edition ...................................... xxv 1 Basics of TECO 1.1 Using TECO ................................................ 1–1 1.2 Data Structure Fundamentals . ................................ 1–2 1.3 File Selection Commands ...................................... 1–3 1.3.1 Simplified File Selection .................................... 1–3 1.3.2 Input File Specification (ER command) . ....................... 1–4 1.3.3 Output File Specification (EW command) ...................... 1–4 1.3.4 Closing Files (EX command) ................................ 1–5 1.4 Input and Output Commands . ................................ 1–5 1.5 Pointer Positioning Commands . ................................ 1–5 1.6 Type-Out Commands . ........................................ 1–6 1.6.1 Immediate Inspection Commands [not in TECO-10] .............. 1–7 1.7 Text Modification Commands . ................................ 1–7 1.8 Search Commands .