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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. -
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 -
– Growing with Our Region Community Information Sheet Issue No
TERMINAL4 FOUR COMMUNITY TEDITION 01 INFO SHEET T4 – Growing with our region Community Information Sheet Issue No. 1 May 2011 A NOTE FROM THE GENERAL MANAGER IntroductionWelcome to the first project information sheet for The Project will have to meet the requirements of a the Port Waratah Coal Services (PWCS) expansion stringent government approvals process. To ensure Welcome to the first Project bottlenecks that have hindered specialists, and Coakes Consulting project, known as the T4 Project. This information that environmental and social issues/impacts are Information Sheet for the Port the Hunter Valley coal chain over to undertake a social assessment for Waratah Coalsheet Services has been (PWCS) designed to providerecent an years. overview of the appropriatelythe project. considered Further in projectinformation planning sheets we have expansion Projectproject, and known some as thebackground on the studies being engaged willEMGA be developed Mitchell McLennan at key milestones to complete to an Over the past decade, demand for T4 Project. This information sheet provide updates on the outcomes of undertaken, and to outline opportunitiescoal through for theyou Port to be of Newcastleenvironmental has assessment, supported by a range has been designed to provide these assessments. grown by more than 32% and PWCS an overviewinvolved of the project, in project some planning. of technical specialists, and Coakes Consulting to capacity is predicted to be exceeded I welcome your feedback on our background on the studies being undertake a social assessment for the Project. PWCS has a legal obligation toin ensure around sufficient 2015. This predicted lack of first information sheet and look undertaken and to outline forward to your involvement in opportunitiesterminal for you capacity to be to meet the longcapacity, term needscoupled of with an increasingFurther information sheets will be developed at key overseas demand for energy and this important project. -
Duplication of Tourle Street and Cormorant Road Kooragang
Appendix E Community consultation documentation Appendix E1: Community submissions summary A summary of submissions received by stakeholders and how they have been considered in provided in Table E1 below. Table E1 Summary of community submissions received for the proposal Date Organisation Community submission Roads and Maritime response 17 Nov 2013 Kooragang Wetlands x Request for additional provision of cycle provisions - x Provisions for cyclists as part of the proposal Rehabilitation Project - cycle crossings in both directions to Industrial Drive and include on-road via widened shoulders. This Hunter Central Rivers access from both directions to the river road cycleway includes 3.0 m shoulders over both bridges and Catchment Management (Tourle Street Bridge to Ash Island Bridge). 2.5 m shoulders along Cormorant Road. The Authority provision of a cycle connection below the northern side of the new Tourle Street Bridge would be investigated further during detailed detail. 20 Nov 2013 Kooragang Open Cycle x Expressed support for the proposal of duplicating Tourle x Support for the proposal noted, particularly Club Street and Cormorant Road. support for proposed cyclist provisions. x The proposal provides a good sized shoulder for the cyclists that use these roads on a regular basis. x The inclusion of these shoulders will improve safety for not only cyclists making their way to and from Kooragang Island for weekend racing, but it will greatly improve safety for cycling commuters who use this road daily by providing greater clearance from the traffic. 22 Nov 2013 Hunter District Cycling x The HDCC committee has discussed the plans you x Support for the proposal noted, particularly Club (HDCC) provided for duplication of Tourle Street and Cormorant support for proposed cyclist provisions. -
The Old Hume Highway History Begins with a Road
The Old Hume Highway History begins with a road Routes, towns and turnoffs on the Old Hume Highway RMS8104_HumeHighwayGuide_SecondEdition_2018_v3.indd 1 26/6/18 8:24 am Foreword It is part of the modern dynamic that, with They were propelled not by engineers and staggering frequency, that which was forged by bulldozers, but by a combination of the the pioneers long ago, now bears little or no needs of different communities, and the paths resemblance to what it has evolved into ... of least resistance. A case in point is the rough route established Some of these towns, like Liverpool, were by Hamilton Hume and Captain William Hovell, established in the very early colonial period, the first white explorers to travel overland from part of the initial push by the white settlers Sydney to the Victorian coast in 1824. They could into Aboriginal land. In 1830, Surveyor-General not even have conceived how that route would Major Thomas Mitchell set the line of the Great look today. Likewise for the NSW and Victorian Southern Road which was intended to tie the governments which in 1928 named a straggling rapidly expanding pastoral frontier back to collection of roads and tracks, rather optimistically, central authority. Towns along the way had mixed the “Hume Highway”. And even people living fortunes – Goulburn flourished, Berrima did in towns along the way where trucks thundered well until the railway came, and who has ever through, up until just a couple of decades ago, heard of Murrimba? Mitchell’s road was built by could only dream that the Hume could be convicts, and remains of their presence are most something entirely different. -
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. -
Cycling Routes Coffs Harbour Bellingen Nambucca
Explore Our Living Coast POPULAR Cycling Routes Coffs Harbour Bellingen Nambucca FREE CYCLING GUIDE www.ourlivingcoast.com.au A B Funding for this booklet Exploring OU T This booklet has been funded through OUR LIVING COAST No matter what your skill level, there and ‘Get Healthy NSW’. It was inspired by the completion of are many opportunities for exploring the introduction the Coffs Creek Cycleway upgrade, a project funded by the Coffs, Bellingen and Nambucca regions Australian Government and Barbara and Allen Hogbin. on two wheels – from dedicated, shared off-road bike paths, to informal bike routes between towns and villages. this booklet Our Living Coast is an alliance of Coffs Harbour City Council, Bellingen Using Shire Council and Nambucca Shire Council and is assisted by the This booklet contains a series of maps, displaying New South Wales Government through its Environmental Trust. a selection of popular cycling routes enjoyed by local cyclists. Each of these maps are followed by a short description of each of the routes. It has been presented in six regions, to enable you to explore at your own pace. Pick a ride route as described, or use the booklet to plot your own ride within or across each region. Select routes that match your skill, confidence Gumbaynggirr Nation and fitness level. The Our Living Coast region encompasses the traditional This is in no way a comprehensive list of every possible homelands of the Gumbaynggirr people. We respect and ride throughout Coffs, Bellingen and Nambucca. For more fully acknowledge the Gumbaynggirr Aboriginal people as ideas on favourite riding routes, ask at one of the local bike traditional custodians of this land. -
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 -
Weekly Road Report for South West Region Monday 19 June 2017 to Sunday 26 June 2017
Weekly road report for South West Region Monday 19 June 2017 to Sunday 26 June 2017 Name of road Albury Street Holbrook Location Ten Mile Creek (between Hay Street and Jingellic Rd) Single or Dual Carriageway Single Type of work Remove and replace Bridge deck and beams Hours of work 7am to 6pm Monday to Friday, 8am to 1pm Saturday Dates and Days Monday 19 June to Saturday 24 June Anticipated Completion Date 7-Jul-17 Work extent Minor traffic diversion around western side of bridge Speed during working hours 20 km/h Speed outside working hours (if different to signposted) 20 km/h Type of Traffic control (VMS Signs, Traffic Lights) Traffic Management control devices in place Delays Minor traffic diversion around eastern side of bridge Vehicle restrictions eg. Height or width and speed restrictions. Stage 1 bridge construction complete. On 10/4/17 Traffic was moved from the western side of the bridge Other Comments to the eastern side to allow construction of Stage 2. Project Officer Hugh McCormick Mobile Number 0427 522 358 2 Name of road Burley Griffin Way Location Ross Road intersection Single or Dual Carriageway Single Type of work Works Authorisation Deed - BAR/BAL construction Hours of work 7am to 6pm Monday to Friday, 8am to 1pm Saturday Dates and Days Monday 19 June to Friday 23 June Anticipated Completion Date 15-Jul-17 Work extent One lane closed as required Speed during working hours 40 km/h Speed outside working hours (if different to signposted) 60 km/h Type of Traffic control (VMS Signs, Traffic Lights) Traffic controllers Delays Up to 5 mins Vehicle restrictions eg. -
Explore the Waterfall Way Scenic Drive
Explore the Waterfall Way scenic drive Explore the Waterfall Way scenic drive, considered one of New South Wales and indeed Australias most beautiful drives. Running east to west from the Pacific Highway to the New England Highway at Armidale, along the drive there are seven national parks, three of which are listed as World Heritage areas. The drive delivers an opportunity to enjoy scenic countryside, national parks, magnificent waterfalls & natural wonders, dotted with bucolic villages – and the odd Aussie-character. Don’t forget to have a camera at the ready, there are photo opportunities galore along the whole route. Our local correspondent and Scotts Head resident Kathleen Crawley shares her in-depth knowledge of the area and her best tips and recommendations. Explore the Waterfall Way scenic drive Where is the Waterfall Way? You can find the eastern start of the Waterfall Way scenic drive at Raleigh, 15 minutes south of Coffs Harbour with the turnoff to Raleigh signed along the Pacific Highway. The drive from end-to-end can easily be done in a few of hours or over a few days. It purely depends on what you choose to do along the road. If you are pressed for time you could fly into Coffs Harbour, hire a car and fly out of Armidale, or vice-versa. Ideally the drive is done over 3 or 4 days. Further reading: Where to stay in Coffs Harbour When to visit the Waterfall Way Autumn is a particularly beautiful time of year to travel this route, with the colours of the autumnal trees providing a stunning backdrop and this is our preferred time of year to visit. -
Bird Watching
ADVENTURE EXPERIENCES Parts of New England High Country belong to the East Kunderang Homestead offers World Heritage Gondwana Rainforests of Australia beautifully restored heritage accommodation for up to 14 people BOULDERING on unique rock formations; New England granite experience a multi-day bushwalking adventure with lots of crimps, flakes and through world-heritage national parks friction. Stonehenge Recreation Park near Glen Innes has over seventy routes. Gara The park’s rock formations are particularly Gorge near Armidale and Bald Rock near photogenic in late-afternoon light or mist. Tenterfield are other classic bouldering Hundreds of kilometres of waterways and rockclimbing destinations. NEW ENGLAND HIGH COUNTRY BOASTS rage and meander through the Oxley Wild Rivers National Park, where huge tracts AN EXTENSIVE GORGE WILDERNESS WITH OVER 500 of magnificent wilderness are also World KILOMETRES OF WILD AND SCENIC RIVERS. DISCOVER Heritage listed. This is where camping, trout MOUNTAIN BIKING is massive in fishing, kayaking, swimming, canyoning and East Kunderang Homestead New England High Country. Local A UNIQUE NATURAL PLAYGROUND WITH MAGNIFICENT abseiling are major attractions. clubs have made over 40km of WATERFALLS, RAINFORESTS AND EXOTIC FLORA AND FAUNA. tracks that present some spectacular and purpose-built tracks around Guyra and The 7km walk from Budds Mare to Riverside varied wilderness walking opportunities. An Armidale. At Washpool and Gibraltar you descends 700m to the Apsley River with great easy amble along the beautiful Coombadhja GREEN GULLY TRACK NEW ENGLAND can ride a 50km loop through World bass fishing, swimming holes, camping and WILDERNESS TRAIL Imagine a place where the geology and biodiversity is Creek takes you through rainforest and dry Experience fern-lined gullies, high Heritage National Parks.