This page will tell you everything you need to know to get up and running on GenomeDK. However, we assume that you have some experience with the command line/terminal.
You should check out our terms of service.
To request a user, fill out the user request form.
Once you’ve been granted access, you’ll receive an e-mail. You’ll then be able to connect to the cluster.
GenomeDK is divided into multiple zones. Most users belong to the open zone. If you’re in doubt about which zone you belong to, check your account confirmation e-mail. If it doesn’t mention a specific zone, you belong to the open zone. If still in doubt, please contact support.
You must first install an authenticator app on your phone (if you don’t already have one). Popular authenticator apps include:
All of these apps will allow you to scan a QR code and generate tokens for future logins.
On your first login, you must set up two-factor authentication. If you do not set up two-factor on the first login, you will not be able to access your account. Read the instructions to the end before logging in for the first time.
On Linux, open the terminal of your choice. On macOS, you may use Terminal.app which can be found in the /Applications/Utilities folder. In both cases, you should now be able to log in to the frontend by typing this command:
[local]$ ssh USERNAME@login.genome.au.dk
On Windows, you have multiple options. On Windows 10, open PowerShell. You should then be able to type:
[local]$ ssh.exe USERNAME@login.genome.au.dk
Older versions of Windows do not include the ssh command and thus you will need to install an alternative yourself. We recommend MobaXterm.
You must now set up two-factor authentication. Run the following command on GenomeDK:
gdk-auth-show-qr
This will show a QR code in your terminal. Open the the authenticator app on your phone and scan the QR code.
On your first login, you must set up two-factor authentication. If you do not set up two-factor on the first login, you will not be able to access your account. Read the instructions to the end before logging in for the first time.
Download and install the remote desktop client for your operating system on your local machine.
Download the connection file for the zone you wish to connect to:
Using the login information received in your mailbox. Login by entering your username and password.
Assuming you entered correctly you will get access to the virtual desktop.
Open the the authenticator app on your phone and scan the QRCode.png located on your NoMachine desktop. From now on you will need to generate a one-time password with the authenticator app every time you log in.
If you forgot your password, send an e-mail to support to request a password reset. You will receive a password reset mail with a new, temporary password.
You should change the temporary password immediately after logging in (see the next section).
You may change your password at any time using the gdk-auth-change-password command.
[fe-open-01]$ gdk-auth-change-password
It will ask you for your current password, then ask what your new password should be. Finally, it will ask you to confirm your new password by typing it again.
These instructions are for Mac/Linux only.
A public-key setup is a way to be able to access one computer from another computer with SSH, but without typing a password every time you want to log in.
On your own computer, open the terminal of your choice and type:
[local]$ ssh-keygen -t ed25519 -q -N ""
This will generate a private/public key-pair with no password. If you have a key already, you can just use that (the command will warn you if you do).
Now copy the public key to GenomeDK:
[local]$ ssh-copy-id -i ~/.ssh/id_ed25519 <username>@login.genome.au.dk
You will be asked to enter your password for the cluster to transfer the public key.
You should now be able to log in to the cluster without typing your password. Test this by runnning:
[local]$ ssh <username>@login.genome.au.dk
You should not be prompted for a password this time.
We provide GenomeDK as a resource to research. If you publish results from computations performed on GenomeDK, it is important that you acknowledge/cite GenomeDK in your publications.
We recommend phrasing it like this:
Some/all of the computing for this project was performed on the GenomeDK cluster. We would like to thank GenomeDK and Aarhus University for providing computational resources and support that contributed to these research results.