IT HPCC user guide
IT Services provides a general purpose Compute Cluster as a resource for researchers within the University.
Login
Once you have been given access:
Log into headnode04.cent.gla.ac.uk with your allocated username and password using ssh
Additional software and other resources
If you require any additional software to be installed or you would like to request any other resources (e.g., local copy of publicly available databases), please contact the UofG Helpdesk.
Before requesting software consider the licensing terms associated with the software.
SSH Setup
Please run this configuration once you are logged into the system
You need to create an ssh key to allow the cluster to pass files back and forth
Run the command to generate your key:
- ssh-keygen -t rsa
When prompted to enter a password just press return, to work with PBS/Torque it needs to be a passwordless ssh - this will create a number of files in ~/.ssh/.
Then you need to run
- cat ~/.ssh/id_rsa.pub >> ~/.ssh/authorized_keys
There is sometimes problems created by the permissions on this authorized_keys file. So check the permissions on ~/.ssh/authorized_keys by running the command:
- ls -l ~/.ssh/
It should show the line (where -rw------- is the important part):
- -rw------- (some other fields) authorized_keys
If it does not run the following command:
- chmod 600 ~/.ssh/authorized_keys
Mail forwarding
It is recommended that you create a .forward file to forward mail to your email address - by default Torque sends mail to you when a job starts & finishes. eg.
touch ~/.forward
echo user@udcf.gla.ac.uk > ~/.forward
cat ~/.forward to check
Permissions are again important check that the permissions are -rw-r--r-- if not run the command
chmod 644 ~/.forward