How to get into Eris (MGB Server)

Sign into Eris each time by:

  1. Connect to Mclean VPN: pvc.partners.org/saml
  2. In terminal, type ssh -Y netID@eristwo.partners.org or ssh -Y netID@dna006.research.partners.org NOTE: netID must be all LOWERCASE.
  3. Type your password Connected!

Data is in…

/data/sbdp/PCM

Tutorial to Get Access to Eris:

  1. If you don’t have “Windows App” setup follow this tutorial: → How To: Intune - Enroll Your Personal Mac
  2. Open Cisco AnyConnect
    1. enter domain: pvc.partners.org/saml
    2. enter MGB ID and password

→ following this tutorial: HOWTO: Configure and Connect to VPN on a Mac

  1. If you don’t have an account on Eris, apply for an account by signing in with your MGB login and filling out the form here: registration link — https://rc.partners.org/scic-cluster-account-request

    • Form field answers:

      ERISOne Linux Cluster Account Request Form Submitted by user: MGB Username: Full Name: Position: Research Collaborator EW Department: RSCH Imaging Center-Baker Institution: The McLean Hospital Corporation Email: @mgb.org Phone: Office Location: REMOTE Principal Investigator: Justin Baker Principal Investigator's Email: <justin's email> Principal Investigator's Mass General Brigham ID: jtbaker Grant or Project ID?: Blank Access Methods: Linux command line using SSH Briefcase Group (PAS): sbdp Data Classification: de-identified human subjects data Lab or storage group: None Purpose: Research Storage Required: Up to 50GB Area of Study: Other (describe in comments section) Applications: python3, pandas, numpy, rclone Comment: "Please add to group sbdp. Area of study: Digital phenotyping. I am the research assistant for Dr Avram Holmes at Rutgers University, and we're collaborating with Dr Justin Baker at McLean. We are doing a joint data collection, and I will be using the Eris servers to rclone the de-identified and some identifiable data from Dr Baker's data collection into the Rutgers servers to compile the full dataset of the joint data collection. Dr Baker's lab members will be putting data for me in a specific folder and I'll be syncing that specific folder to the Rutgers cluster. My access to this data and the joint sharing of PHI data is all approved in a McLean IRB and Rutgers IRB."

ERIS Information: https://rc.partners.org/it-services/computational-resources#erisone-linux-cluster

The ERIS Linux Cluster is an ecosystem of scientific computing resources centered around a cluster of remote-desktop and compute nodes connected to very high speed storage. A large selection of popular scientific applications are installed and you can request additional software packages to be added.  The cluster runs a Linux operating system and requires some familiarity with Linux for efficient use.

This platform is ideal for workflows that run many jobs in parallel, and for those that read and write many files or require very high speed access to data files.  A job scheduling system queues jobs for dispatch to the compute nodes, allowing submission of many jobs at once.  Linux remote-desktop nodes allow graphical applications for data visualization to interacting with data stored on the cluster, as well as software development and application testing.  Some research groups also dispatch analysis pipeline jobs to the cluster through custom web-portals.

Typical Uses

  • Medical image processing
  • Genome sequencing
  • Monte-carlo modeling
  • MPI parallel workloads
  • Very large memory jobs
  • AI/ML and Deep Learning using NVIDIA GPUs

Supported methods of connecting to the cluster

  • SSH command line terminal for job submission
  • NoMachine Linux remote desktops for graphical applications
  • Network file share (SMB/CIFS) for data transfer
  • Web portals and applications (R Studio, Jupyter, etc)

Getting an account?