Feb 23-24, 2015
9:00 am - 4:30 pm
Instructors: Sung Bae, John Rugis, Bill Mills
Helpers: Constantine Zakkaroff, Tom Kelly
The New Zealand eScience Infrastructure (NeSI) is pleased to announce it's collaboration with University of Canterbury and Software Carpentry in offering a Canterbury Region Workshop designed to support researcher computing capability development.
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.
Who: The course is aimed at graduate students and other researchers.
Contact: Please mail email@example.com for more information.
|09:00||Automating tasks with the Unix shell|
|13:00||Building programs with Python|
|09:00||Version control with Git|
|13:00||Review and Open Session|
|14:30||Coffee and Wrap-up|
We will use this Etherpad for chatting, taking notes, and sharing URLs and bits of code.
NOTE: See Etherpad for details on Canterbury WIFI login .
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.
In a pinch, you can use
which should be pre-installed.
Kate is one option for
Linux users. In a pinch, you can use
should be pre-installed.
Python is a popular language for scientific computing, and great for general-purpose programming as well. Installing all of its scientific packages individually can be a bit difficult, so we recommend an all-in-one installer.
We recommend the all-in-one scientific Python installer Anaconda. (Installation requires using the shell and if you aren't comfortable doing the installation yourself just download the installer and we'll help you at the boot camp.)
bash Anaconda-and then press tab. The name of the file you just downloaded should appear.
yesand press enter to approve the license. Press enter to approve the default location for the files. Type
yesand press enter to prepend Anaconda to your
PATH(this makes the Anaconda distribution the default Python).
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.
Install Git for Windows by download and running the installer. This will provide you with both Git and Bash in the Git Bash program.
For OS X 10.8 and higher, install Git for Mac
by downloading and running
After installing Git, there will not be anything in your
as Git is a command line program.
For older versions of OS X (10.5-10.7) use the
most recent available installer for your
here. Use the Leopard installer for 10.5 and the Snow
Leopard installer for 10.6-10.7.
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.
Bash is a commonly-used shell that gives you the power to do simple tasks more quickly.
Bash should be installed on your computer as part of your Git install (described above).
The default shell in all versions of Mac OS X is bash, so no
need to install anything. You access bash from the Terminal
/Applications/Utilities). 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