ERISOne Linux Cluster Quick Start Guide

Service Overview

An overview of the ERISOne Linux Cluster with information relating to the service can be found in the Computational Resources section of our website.  The cluster webpage also contains links to the account sign-up form, request forms for applications or storage and the support and feedback forms.  Review the typical uses for each of the computational resources offered by ERIS to determine the most suitable platform.

Information about using the cluster is found in the Computational Resources and Analyze Data sections of our KnowledgeBase

Details of our introductory training courses for Linux and ERISOne are in the Scientific Computing section of our Training Page

Obtaining an account

First determine the most suitable platform for your project. Then complete the ERISOne Linux Cluster account request form, or the corresponding form for the compute platform selected.  Estimating the storage, applications and compute time required for your projects will help us provide these services.  If you will require access to an existing data folder for your lab / project, find out from the data owner the name of the corresponding group in order to request this access on the account request form. 

Once registered your account should be ready in 24-48 hours. 

Connecting to ERISOne

Command-line SSH

Opening a command-line terminal session using an SSH client is the most common way to connect to ERISOne.  This method requires some familiarity with the Linux operating system.  To open an SSH connection to ERISOne

  • From a PC running Microsoft Windows
    • Download the PuTTY ssh client (putty.exe)
    • Double click the downloaded file
    • Enter the following connection information and press "Open"
      • Host Name (or IP address): erisone.partners.org
      • Port: 22
      • Protocol: SSH
    • Enter your Partners user ID and password when prompted
  • From a Mac or Linux computer
    • Open the "Terminal" application
    • replace "abc123" with your Partners user ID, and type this line followed by your Partners password:
ssh abc123@erisone.partners.org

The first time you connect to ERISOne a message will appear showing the rsa2 key fingerprint.  Select "Yes" to proceed if the fingerprint matches either of these lines:

RSA key fingerprint is fd:47:1d:31:83:66:41:06:e6:d7:3d:16:8b:05:aa:f2
RSA key fingerprint is SHA256:cdQkBDEw4VOvmxf/rU8YP0Y59Yyw3kK2g9JP9iva+v4

Remote Desktop

A remote desktop is ideal for using graphical applications with data stored on the cluster, and for a persistent workspace.

Web Applications

Web applications allow running jobs, analytics and visualization using only a web-browser. Sections of the quick-start guide below may not apply if you exclusively use to the cluster through a web-browser.

Several labs have web-portals for running analysis pipelines on ERISOne.  Applications supported by the ERIS Scientific Computing team include

  • RStudio

Submit a feature request for other web applications. 

Transferring Data

Compute nodes, login nodes and remote desktops...

Within the ERISOne compute cluster, computers and referred to as "nodes". Find out which node you are currently working on from its host name, which is shown in the terminal prompt, or from the output of the "hostname" command

hostname
eris1n3.research.partners.org

Login nodes

All users of the cluster log initially log in to these nodes, which are named eris1n2, eris1n3 etc.  For the benefit of all cluster users, use of these nodes should be limited to job submission, file editing and small-scale file copying.

Compute nodes

Any computational and data-intensive work takes place on the compute nodes.  Time and resources on these nodes is exclusively granted by a request to the the job scheduler to prevent resource conflicts between jobs. You can request a command-line session immediately on a compute node using the interactive queue.  Compute nodes are named cmu001… ib001… gpu001…

Remote desktop nodes

Graphical applications running in remote desktops and interactive command line sessions are on these nodes.  The hostnames are rgs01…

Running an Application or Job Script

Help and support for ERISOne Services

For questions related to the use of ERISOne, first check the frequently asked questions in our Knowledge Base.  For service request, software installation requests and reporting problems fill the appropriate form from our Forms Library and contact Scientific Computing Support with further queries. 

Note that email correspondence from the Scientific Computing support team includes a message header inviting you to check the status of the support requests online.  The ticket site http://tickets.partners.org/ does not use your Partners ID or password for log-in.  Request a new password using your primary email address as the username.


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