Quick Start Guide to Fred Hutch Research Computing

Updated: October 17, 2019

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This guide is intended for rapid onboarding of Fred Hutch staff who have previous experience working with computing resources at other academic institutions. Overview information and links to relevant portions of the Wiki for getting started and basic usage of Fred Hutch resources is the primary focus. We highlight, as well, specific steps new staff or existing staff who have not previously needed to use these resoruces might need to take in order to get set up to use these resources.

Accounts

HutchNet ID

A HutchNet ID (username and password) are assigned to Fred Hutch employees and affiliates via the employee action form. These credentials can access most Hutch-supported compute resources.

GitHub

GitHub is an essential part of many workflows- GitHub is an external service which does require additional steps described here.

Access

On Campus

Access to the campus network is either a cable to a wall port or via the WiFi network “marconi”. The “marconi” network uses your HutchNet ID for authentication.

Both are supported by CIT- email the Service Desk for assistance with either network.

Remote Access

As a general rule, computational resources are not available outside the Hutch campus network. To access computational resources, you will need to connect to the campus network over the Internet using the CIT supported VPN. Shell (ssh) access is available via the host snail

Core Computational Resources

Bioinformatic Applications

Scientific Computing maintains hundreds of bioinformatic and development tools for use on the above resources. These are managed using environment modules- AKA lmod

Interactive Shell

The “rhino” hosts are identically configured, shared linux servers that provide shell and bioinformatic application access.

Batch Computing

The on-premise compute cluster is gizmo- the clusters koshu and beagle are based in off-site cloud providers. You can read about these and additional resources here.

The compute clusters use Slurm for workload management. This is the interface for submitting and managing batch jobs to these clusters.

Additional Help and Support

  • Scientific Computing

    SciComp supports much of the storage and computational resources used for research at the Hutch. Support is offered via email and office hours.

  • Service Desk

    The CIT Service Desk is the point of contact for most compute support, including email, your workstation, networking questions, and your HutchNet ID. Support is offered via email, phone, and walk-up.

  • Local IT Support

    Hutch divisions have their own IT support that provides support for many IT resources, including your workstation, some account and permissions, as well as assistance navigating the Hutch’s IT world:

    • PHS (link to come)

    • HB/BS (link to come)

    • VIDD/SCHARP (link to come)

    • CRD (link to come)

  • The Coop

    Supports data-intensive research and analysis. The Coop uses community and community tool (like Slack) to connect researchers across the Hutch.

Updated: October 17, 2019

Edit this Page via GitHub       Comment by Filing an Issue      Have Questions? Ask them here.