Bioint01

bioint01.hpc.uio.no is an AMD EPYC 7501 128-Core Processor and 130 GB of memory.

Getting access

Send an e-mail to hpc-drift@usit.uio.no and ask to be given access to bioint01.hpc.uio.no. Inform of your UiO username. We need to manually add you to the system.

Logging In

Once access is arranged by hpc-drift, you log into the machine using Secure Shell (SSH) in a terminal.  SSH login is available natively to Linux or Mac OSX (or any UNIX-based systems). On Windows machines an SSH client is needed, for example, PuTTY.

 

To log in you need to issue the command

ssh <username>@bioint01.hpc.uio.no

Limits on memory and number of processes

To avoid a user freezing up the system due to out-of-memory issues or otherwise hugging all the resources for him/herself we have enforced the following limits:

  • bioint01.hpc.uio.no - has in total 130 GB memory and 128 threads
  • Each user can only use max 80 GB memory and 100 processes as a hard limit.

Local storage

Home directories are mounted via NFS, but for efficiency bioint01 also has a 7.3 TB disk mounted on /work as a scratch area.

Software

Qiime:

How to activate qiime:

source /opt/anaconda3/conda.start
conda activate /opt/anaconda3/env/qiime2/2021.8