Dec 7, 2018
9:00 am - 4:00 pm
Instructors: Shane Sanders, Dave McKenzie, Jason Macklin
Helpers: Bill Flynn, Neil Kindlon, Sandeep Namburi
This workshop is only open to Jackson Laboratory employees.
Where: Holt Conference Room 1405, 10 Discovery Dr, Farmington CT. Get directions with OpenStreetMap or Google Maps.
When: Dec 7, 2018. Add to your Google Calendar.
Requirements: Participants must bring a laptop with a Mac, Linux, or Windows operating system (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 Code of Conduct.
Accessibility: We are committed to making this workshop accessible to everybody. The workshop organizers 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 (using contact details below) and we will attempt to provide them.
Contact: Please email susan.mcclatchy@jax.org for more information.
Before | Pre-workshop survey |
09:00 | Welcome and introductions |
09:15 | Introducing the Shell |
09:20 | Navigating Files and Directories |
10:00 | Working With Files and Directories |
10:30 | Coffee |
10:45 | Working With Files and Directories (continued) |
11:05 | Pipes and Filters |
12:00 | Lunch break |
13:00 | JAX Cluster Resources |
14:30 | Coffee |
14:45 | JAX Cluster Resources (continued) |
15:45 | Post-workshop survey |
16:00 | END |
We will use this collaborative document for chatting, taking notes, and sharing URLs and bits of code.
To participate in a workshop, you will need access to the software described below. In addition, you will need an up-to-date web browser.
Bash is a commonly-used shell that gives you the power to do simple tasks more quickly.
The default shell in all versions of macOS 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.
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 macOS 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. It is installed along with Git.
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.
JAX provides access to high performance computing (HPC) through two computing clusters: 1) Cadillac, which serves Bar Harbor; and 2) Helix, which serves Farmington.