Oct 10-11, 2016
9:00 am - 4:30 pm
Instructors: Tim Dennis, Harrison Dekker
Helpers: Scott Peterson, Jennifer Dorner, Anna Sackmann, Jamie Wittenberg
Introducing Library Carpentry, a Software Carpentry based workshop series aimed at librarians, archivists, museum professionals, and other information professionals. This workshop is brought to you by UC Berkeley Library and volunteers of Software Carpentry.
Software Carpentry's mission is to help scientists and engineers get more research done in less time and with less pain by teaching them basic lab skills for scientific computing. This hands-on workshop will cover basic concepts and tools, including program design, version control, data management, and task automation. Participants will be encouraged to help one another and to apply what they have learned to their own research problems.
For more information on what we teach and why, please see our paper "Best Practices for Scientific Computing".
Who: The course is aimed at librarians, archivists, museum professionals, and other information professionals. You don't need to have any previous knowledge of the tools that will be presented at the workshop.
Where: 190 Doe Library. Get directions with OpenStreetMap or Google Maps.
Requirements: Participants must bring a laptop with a Mac, Linux, or Windows operating sytem (not a tablet, Chromebook, etc.) that they have administrative privileges on. They should have a few specific software packages installed (listed below). They are also required to abide by Software Carpentry's Code of Conduct.
Accessibility: We are committed to making this workshop accessible to everybody. The workshop organisers have checked that:
Materials will be provided in advance of the workshop and large-print handouts are available if needed by notifying the organizers in advance. If we can help making learning easier for you (e.g. sign-language interpreters, lactation facilities) please get in touch and we will attempt to provide them.
Contact: Please mail speterso@library.berkeley.edu for more information.
Surveys
Please be sure to complete these surveys before and after the workshop.
| 09:00 | Welcome & Introduction |
| 09:15 | Jargon Busting/Foundations |
| 10:15 | Break |
| 10:30 | Regular Expressions (Regex) |
| 12:00 | Lunch break |
| 13:00 | Bash Shell/Git |
| 14:30 | Coffee |
| 16:00 | Wrap-up |
| 09:00 | Introduction to Open Refine |
| 10:15 | Break |
| 10:30 | Open Refine (Cont.) |
| 12:00 | Lunch break |
| 13:00 | Data Mangement with SQL |
| 14:30 | Coffee |
| 16:00 | Wrap-up |
Etherpad: http://pad.software-carpentry.org/berkeley-libcarp.
We will use this Etherpad for chatting, taking notes, and sharing URLs and bits of code.
Download the Data:Data.zip We'll be using this data for the workshop.
To participate in a Software Carpentry workshop, you will need access to the software described below. In addition, you will need an up-to-date web browser.
We maintain a list of common issues that occur during installation as a reference for instructors that may be useful on the Configuration Problems and Solutions wiki page.
Bash is a commonly-used shell that gives you the power to do simple tasks more quickly.
cmd and press [Enter])setx HOME "%USERPROFILE%"
SUCCESS: Specified value was saved.exit then pressing [Enter]This will provide you with both Git and Bash in the Git Bash program.
The default shell in all versions of Mac OS X is Bash, so no
need to install anything. You access Bash from the Terminal
(found in
/Applications/Utilities).
See the Git installation video tutorial
for an example on how to open the Terminal.
You may want to keep
Terminal in your dock for this workshop.
The default shell is usually Bash, but if your
machine is set up differently you can run it by opening a
terminal and typing bash. There is no need to
install anything.
Git is a version control system that lets you track who made changes to what when and has options for easily updating a shared or public version of your code on github.com. You will need a supported web browser (current versions of Chrome, Firefox or Safari, or Internet Explorer version 9 or above).
You will need an account at github.com for parts of the Git lesson. Basic GitHub accounts are free. We encourage you to create a GitHub account if you don't have one already. Please consider what personal information you'd like to reveal. For example, you may want to review these instructions for keeping your email address private provided at GitHub.
Git should be installed on your computer as part of your Bash install (described above).
For OS X 10.9 and higher, install Git for Mac
by downloading and running the most recent "mavericks" installer from
this list.
After installing Git, there will not be anything in your /Applications folder,
as Git is a command line program.
For older versions of OS X (10.5-10.8) use the
most recent available installer labelled "snow-leopard"
available here.
If Git is not already available on your machine you can try to
install it via your distro's package manager. For Debian/Ubuntu run
sudo apt-get install git and for Fedora run
sudo yum install git.
When you're writing code, it's nice to have a text editor that is
optimized for writing code, with features like automatic
color-coding of key words. The default text editor on Mac OS X and
Linux is usually set to Vim, which is not famous for being
intuitive. if you accidentally find yourself stuck in it, try
typing the escape key, followed by :q! (colon, lower-case 'q',
exclamation mark), then hitting Return to return to the shell.
nano is a basic editor and the default that instructors use in the workshop. To install it, download the Software Carpentry Windows installer and double click on the file to run it. This installer requires an active internet connection.
Others editors that you can use are Notepad++ or Sublime Text. Be aware that you must add its installation directory to your system path. Please ask your instructor to help you do this.
nano is a basic editor and the default that instructors use in the workshop. See the Git installation video tutorial for an example on how to open nano. It should be pre-installed.
Others editors that you can use are Text Wrangler or Sublime Text.
nano is a basic editor and the default that instructors use in the workshop. It should be pre-installed.
Others editors that you can use are Gedit, Kate or Sublime Text.
SQL is a specialized programming language used with databases. We use a simple database manager called SQLite in our lessons.
In this lesson we will primarily use the SQLite Manager plugin for Firefox. If you don't have Firefox installed, you need to install it first and then you will be able to add the plugin.
Optional Command Line SetupYou may also interact with SQLite via the command line. If you would like to set you your machine to be able to do this, follow the below instructions.This is optional.
The Software Carpentry Windows Installer installs SQLite for Windows. If you used the installer to configure nano, you don't need to run it again.
SQLite comes pre-installed on Mac OS X.
SQLite comes pre-installed on Linux.
If you installed Anaconda, it also has a copy of SQLite
without support to readline.
Instructors will provide a workaround for it if needed.
OpenRefine (previously Google Refine) is a tool for data cleaning that runs through a web browser, and any browser - Safari, Firefox, Chrome, Explorer - should work fine. You will need to download Google Refine and install it, and when you open it, it will run through the browser, but you don't need an internet connection, and the data will all be stored on your computer.
http://localhost:3333 and you should see OpenRefine.