Configuring environment on Collab resources
Login through Terminal
The following are the Secure Shell (ssh) login commands to access ROAR-Collab resources. Just replace mypsuusername with your PSU username.
ssh mypsuusername@submit.hpc.psu.edu
# Type PSU password when prompted
# DUO authenticate
Logout with Ctrl-D
Set-up login shortcut
Configure ssh to include the ACI-ROAR alias for logging in.
Start by creating an ssh config file, ~/.ssh/config if it doesn't exist. Then append the following to the file, replacing myusername with your PSU username.
- ACI-ROAR
- ROAR-Collab
Host aci submit.aci.ics.psu.edu
HostName submit.aci.ics.psu.edu
User mypsuusername
HostbasedAuthentication no
You can now login to ACI from terminal by typing
ssh aci
Host collab submit.hpc.psu.edu
HostName submit.hpc.psu.edu
User mypsuusername
HostbasedAuthentication no
You can now login to ACI from terminal by typing
ssh collab
Configure ssh to skip password prompt (RSA key pair)
Follow the instructions posted here: https://www.ibm.com/support/pages/configuring-ssh-login-without-password
What is module?
Module commands let you turn on/off pre-installed software that the IT/sysadmins set up for us. Use load to turn software “on” and unload to turn software “off”
Before installing Anaconda, Samtools, Bedtools, or BWA yourself, try using the Module system on ACI
module load anaconda3
module load samtools
module load bedtools
module load bwa