Computing resources

Lab has a number of computing resources - general purpose computing node, a database server, a VM environment, and a small cluster. For most things, BMIR IT team ( Alex Skrenchuk and Graham Freeman) and can grant you access. In order to get access, email bmir-it-team@lists.stanford.edu, cc me asking to deny if inappropriate.

Access to most of the resources requires connecting to the VPN (https://vpn.stanford.edu). As a general rule you should use SUNet ID credentials for authentication. A notable exception is MySQL. MySQL user name as the same as your SUNet ID and password is stored in the ~/my.cnf file on your server home directory.

khatrialb-dev1.stanford.edu is the server that you can use for most of your work. If you have a project requiring high CPU/Memory needs consider using cluster.

khatrilab-db1.stanford.edu is our database server.

Login Info

• login: Your SUNet
• Password: Your initial password is stored in ~/my.cnf

https://rstudio.khatrilab.stanford.edu

We have a BMIR owned cluster (10 nodes) shared with the Shah lab. Access is via khatrilab-dev1.stanford.edu. See here for details and some usage instructions.

• For complete code samples see Parallel processing for tips on how to access from khatrilab-dev1
• Cheat sheet for SLURM commands