Klauda Lab Simulation Wiki

This page is read only. You can view the source, but not change it. Ask your administrator if you think this is wrong.
[[sidebar]]

Listed below are instructions for setting up accounts on MARCC/BlueCrab located at JHU (with co-support from UMD).  

//Instructions//:

If asked to form an account on MARCC you need to request to be added as a user.  Use the following link:

http://www.marcc.jhu.edu/request-access/request-an-account/

Once this is done, Dr. Klauda will need to approve this request and with a day you should have an account. 

Details of MARCC can be found:

http://www.marcc.jhu.edu/about-marcc/about-us/

Now for the cluster setup:

If you are not familiar with the use of LINUX, I would first go through some on-line tutorials for commands to use in LINUX and here ([[Linux Guide]]). To login to MARCC you will need multi-factor authentication: 

http://www.marcc.jhu.edu/getting-started/connecting-to-marcc/ 

Windows you will need to have PuTTY ([[Extra Software]]) to connect to MARCC:

http://www.chiark.greenend.org.uk/%7Esgtatham/putty/

And the following program will be useful to transfer files between MARCC and your computer

http://winscp.net/eng/index.php

Built-in commands for MAC users can be used to connect via the command line (scp) and apps for file transfer (eg, cyberduck).

Then, take a general look at the website of the MARCC to get a general idea on how to login and submit jobs via SLURM. Your jobs should not run in your home directory.  They should instead be in the work directory.  This is a linked directory in the home.  It is shared with all users so please make a user directory with your user name (replace username with your username (w/o @umd.edu):

<code commend>cd work
mkdir username 
</code>




==== Example files for running on gpus ====
Make adjustments depending on your system\\
{{ ::marcc-prod.gz |}}

==== Example file for running on CPUs ====
Make adjustments depending on your system\\
{{ :dyn.zip |}}