This is a description of the upgrade to Ubuntu Focal 20.04 of our cluster and what users may have to do to take advantage of it.
The upgrade will start 2021-04-19.
The current operating system version we are using is Ubuntu Xenial 16.04 which reaches End-Of-Life 2021-04-30. We therefore have to upgrade to a newer version which will continue to receive (security)upgrades.
To minimize the downtime and impact to the users, the upgrade will be done by
Jobs submitted before the upgrade starts will continue to run on the old part of the system (which will slowly shrink in size as nodes are upgraded).
Access to user data will not be affected in any way due to this upgrade.
The upgrade also means that all the software currently available through the module system will be rebuilt. User built software likely also has to be rebuilt, especially if previously built using an older compiler version. This should not be done while jobs are running with the old build.
Note: this is likely to include any python virtual environments created.
Due to us rebuilding all pre-installed software there may be parts missing initially.
We invite all users to start checking out what we have already prepared and let us know what other softwares and/or versions are required from the module system.
To do this we have prepared one node with the Focal installation that you can log in to and see what is currently built and what is missing. If you have built your own software please contact support using the information below before trying to use it on the Focal nodes, we may not have built the required toolchain or libraries yet.
The temporary login node to use for this pre-upgrade testing is kebnekaise-focal.hpc2n.umu.se.
It is already possible to submit jobs to a few upgraded nodes, both normal and GPU enabled. There are special partitions set up to handle the Focal part of the systems. When logged in to kebnekaise-focal the default is to send jobs to the Focal based partitions, please avoid explicitly targeting a partition (with the #SBATCH -p option) during the initial test phase. The Focal partitions are currently hidden, so to see jobs submitted there add "-a" to squeue, i.e.,
squeue -a -u your-user-name
Wednesday 2021-04-21 14:00
Thursday 2021-04-22 09:00
Friday 2021-04-23 08:30
Tuesday 2021-04-27 09:30
The sooner you let us know what is missing, the sooner we can build it.