Instructors:
Jason Macklin, Richard Yanicky, David McKenzie, Aaron McDivitt
Helpers:
Matt Bradley
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General Information
This workshop introduces high performance computing using
the Jackson Laboratory’s computing cluster. The goal
is to teach novice programmers to use powerful tools and
computing resources, and to engage in best practices
for using these resources. The emphasis of this workshop
is to teach best practices for
scientific computing in high performance computing environments.
By the end of this workshop, participants will be able to:
connect to a cluster
write simple shell scripts
submit and manage jobs on a cluster using a scheduler
transfer files
use software through environment modules
Who:
The course is aimed at graduate students and other researchers at the Jackson Laboratory.
For IT security reasons, external participants will not be admitted.
Knowledge of basic UNIX shell commands is a prerequisite for this training.
Where: This training will take place online.
The instructors will provide you with the information you will need to connect to this meeting.
Requirements:
Participants must have access to a computer with a
Mac, Linux, or Windows operating system (not a tablet, Chromebook, etc.).
They should have a few specific software packages installed (listed below).
Accessibility:
We are dedicated to providing a positive and accessible learning environment for all. Please
notify the instructors in advance of the workshop if you require any accommodations or if there is
anything we can do to make this workshop more accessible to you.
If your "HOME" environment variable is not set (or you don't know what this is):
Open command prompt (Open Start Menu then type cmd and press [Enter])
Type the following line into the command prompt window exactly as shown:
setx HOME "%USERPROFILE%"
Press [Enter], you should see SUCCESS: Specified value was saved.
Quit command prompt by typing exit then pressing [Enter]
The default shell in some versions of macOS is Bash, and
Bash is available in all versions, 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.
To see if your default shell is Bash type echo $SHELL in
Terminal and press the enter/return key. If the message printed does
not end with '/bash' then your default is something else and you can run
Bash by typing bash.
The default shell is usually Bash and there is usually no need to
install anything.
To see if your default shell is Bash type echo $SHELL in
a terminal and press the enter/return key. If the message printed does
not end with '/bash' then your default is something else and you can run
Bash by typing bash.