Install environment
Last updated
Last updated
Login and navigate to your home folder
download and unzip (There are hidden files/directories)
Note: Make sure that the etc/skel/.bashrc from the zip file was already deployed as root and that /etc/skel/.bashrc was copied to your home dir when it was created( cp /etc/skel/.bashrc ~ ). If your .bashrc does not have the stuff from the template, you can add it manually and notify an admin to deploy the template in /etc/skel/.
create folder where the modules will be
NB: Lmod must already have been deployed as root using your Linux distro's package manager. NB2: if apps modules is not possible then ~/.bashrc should also be changed
If lmod is not installed, please do the following (admins-only) in our case for CentOS use
To verify /apps/modules/modules.bashrc gets sourced: logout + login. When ${HPC_ENV_PREFIX} is set your are good to continue to the next step.
logout and login again
Note: some sources should be downloaded manually (see below)
The following packages should be on the cluster/VM (this can only done with root access:
There are 2 options:
Fork this repo to your own repo and then do a git clone (on the cluster, then you can skip 8b)
Download the latest zip or tar.gz at
Now that easybuild is installed we have to have the molgenis easybuild configs because it contains a lot of custom easyconfigs that are (sometimes were at the moment we began with this) not in the original easybuild repo from Ghent University:
(proceed to 8b)