How to login to Linux Research Machines

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To log into the Linux Research Machines, you will need to use an ssh client. SSH stands for Secure Shell, and it is the primary method for interacting with remote Linux machines. Any computer running Linux or Mac OS X should have access to the ssh client resident on the system. Any computer running Windows will need to have an SSH client downloaded. We recommend the PuTTY ssh client. If your computer was set up by Biology IT, the PuTTY client is probably already on your computer.


Note: There have been several reports about malicious attempts to hack into computers by providing modified PuTTY binaries. Please only download this from the above link; this is the main download repository for PuTTY.


Prerequisites


Here's what you need:


  1. SSH client installed on your computer
  2. Your netid and password

Accessing the Linux Research Machines via Windows


  1. Download PuTTY from http://www.chiark.greenend.org.uk/~sgtatham/putty/ or the previous link. The "putty.exe" download is good for basic SSH, as it functions without installing any packages.
  2. Save the download to some location in your user directory. It would be a good idea to place this somewhere other than your Downloads folder, as items in this folder may be deleted at some point.
  3. Double-click the putty.exe program to launch the application.
    • Note: You may receive a warning that the publisher cannot be verified. If you have downloaded this program from a source linked on this page, it should be safe to select Run.
  4. Enter your connection settings:
  • Host

    - For Bigram: bigram.ent.iastate.edu

    - For Biocrunch: biocrunch.ent.iastate.edu

    - For Speedy: speedy.ent.iastate.edu

    - For Speedy2: speedy2.ent.iastate.edu
  • Port 22
  • Connection Type: SSH
  1. ​Click Open to start your SSH session.
  2. If this is your first time connecting to this server from this computer, you will receive an alert similar to the one below. Accept the connection by selecting Yes.
  3. Once the SSH Connection is open, you should see a terminal prompt asking for your username (your netid)
  4. Next, enter your password. Please note that you will NOT see your cursor moving, or any characters typed (such as ******), when typing your password. This is a standard PuTTY security feature. Hit enter.
  5. You are now logged into the server with SSH. You can begin typing commands at the prompt.

​​Accessing the Linux Research Machine via Mac OS X and Linux


  1. Open up your favorite terminal application, such as the one in Applications / Utilities / Terminal.
  2. Type the following string, replacing <username> with your research machine username:
    For eg: ssh <username>@bigram.ent.iastate.edu
  3. If this is your first time connecting to this server from this computer, you will receive a message similar to the following. Type 'yes' and hit the Enter key to continue.

    The authenticity of host 'example.com (1.2.3.4)' can't be established.

    ECDSA key fingerprint is SHA256:85XQqNFOQdSnHKH3AxOm8lIgtB948DF+qCgMYah+km0.

    Are you sure you want to continue connecting (yes/no)? yes

    Warning: Permanently added 'example.com,1.2.3.4' (ECDSA) to the list of known hosts.

  4. Next, enter your password. Please note that you will NOT see your cursor moving, or any characters typed when typing your password. Hit Enter.
  5. You are now logged into the server with SSH. You can begin typing commands at the prompt.
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