Cluster

Connect

get a password

• press the PASS WORD button on your crypto card
• enter passoword
• press enter
• the 7 digit password is given (without the dash)

ssh to the gateway computer (hadley)

note: please don't use the gateway for computations (e.g. matlab)!

 ssh -Y neuro-calhpc.berkeley.edu (or hadley.berkeley.edu) 

and use your crypto password

Useful commands

Start interactive session on compute node

• start interactive session: qsub -X -I
• start interactive session on particular node: qsub -X -I -l nodes=n0001.cortex

Perceus commands

The perceus manual is here

• listing available cluster nodes:

 wwstats

• list cluster usage

 wwtop

• to restrict the scope of these commands to cortex cluster, add the following line to your .bashrc

 export NODES='*cortex'

• module list
• module avail
• module help

• help pages are here

Matlab

note: remember to start an interactive session before starting matlab!

We don't currently have a proper Matlab installation. However, you can run an old version by appending the following to the .bashrc file in your home directory:

 export PATH=$PATH:/global/home/users/jack/matlab74/bin