New C-SUB user orientation

What to do BEFORE the C-SUB JHPCE Orientation Session

There is a lot of material for us to cover and you to absorb. It is vital for your success that you complete a number of steps PRIOR to attending the Orientation Session for the CMS Subcluster of the JHPCE (pronounced by its letters J-H-P-C-E) cluster.

  • Download a copy of the slides from the Orientation from:JHPCE-Overview-CMS.pdf.
  • If you have never used a Linux or Unix system before, we strongly recommend going through the Unix Command Line tutorial. The cluster is entirely Linux based. Our Orientation is about using the cluster, not using Linux. This tutorial should only take 30 minutes or so to go through.
  • In order to access the JHPCE cluster and make use of the applications on the cluster, you may need to install additional software on your smart phone and laptop.
  1. Install the 2 Factor Authentication program.  The JHPCE cluster makes use of “Google Authenticator” to provide enhanced security.  You can choose to either install an app on your smartphone or, if you do not have an Apple or Android based smart phone, you can install an extension to the Google Chrome browser.  Prior to the Orientation Session, you will only need to download the GoogleAuthenticator app on your smart phone, or install the Authy Chrome extension. We will be configuring Google Authenticator during the Orientation Session. Please see for instructions.
  2. Install required client software.  You may need to install a couple of programs on your laptop or desktop in order to access the JHPCE Cluster.  You will need 1) an SSH client for logging in, 2) an SFTP client for transferring files to and from the cluster, and 3) an X11 client for displaying graphics back from the JHPCE cluster.  The SSH client is a requirement – the SFTP and X11 clients are preferable but optional.
    • Microsoft Windows
      We have found that the easiest program to use for accessing the JHPCE cluster is MobaXterm as it combines the functionality of all 3 software packages (SSH, SFTP, and X11) in 1 program.  Install MobaXterm by following the first few steps of .  Alternatively, if you already use an SSH client, (such as putty or Cygwin) and an SCP client  (such as WinSCP), you can continue using that software.
    • Apple Macintosh
      – There are built in command line tools for ssh and scp that can be run from a Terminal window.  The Terminal program can be found in “Applications -> Utilities”.  From a Terminal window, you would type:
             ssh <username>
      and then login with the login id and the password we provided to you.- In order to run graphical programs on the cluster and have them displayed on your Mac, you will need to install XQuartz from Optionally, you can also install a GUI based SFTP program such as “Filezilla“.  One note about Filezilla – if you download the package from the default link on SourceForge, you may be be blocked by your MalWare/Virus Scanner, or prompted to install Potentially Unwanted Programs (PUPs) during installation.  We recommend you follow the alternative download link here to download a clean copy of the program.

Best practices: passwords and authentication

  • Do not share your password with ANYONE.
  • Choose a “good” password using special characters and letters and digits.
  • It would be best if your password was unique and not the same password you use on other systems.
  • If you believe your password or your computer have been compromised please reset your password using a different device. Visit  to reset your password.  This web site is only available on campus, so if you are outside of the school network, you will need login to the JHU VPN first. You will log into that page with your JHED ID and password.
  • Hopkins staff will *NEVER* send you an email message asking for your password or login credentials
  • *NEVER* give out your password and login ID to anyone in an email message or on a web page.