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The Harvard-ACMG Knowledge Base contains information about getting started with local computational resources. We hope that new Harvard-ACMG members will find this information useful.

Table of Contents

• IMPORTANT, PLEASE READ: Operating system update on Cannon in June 2023

• First time setup instructions for new Harvard ACMG members

• Group FAQs. In this document, Daniel and Loretta answer questions about everything including work expectations, remote work policies, and more. This document is password protected; for the password, you can message Drew Pendergrass or Bob Yantosca. It is the same password as for the group meeting Zoom, all lowercase.

• Getting started on the FASRC Cannon cluster

  • Set up SSH keys for accessing Cannon and other remote machines
  • Install configuration files from our cannon-env repository
  • List of local resources on Cannon (partitions & storage)
  • Cannon cluster etiquette
  • Know how to prevent RSI injury

• Using the Slurm scheduler to submit jobs on Cannon

  • Part 1: Partitions, Interactive jobs
  • Part 2: Batch jobs
  • Part 3: Check the status of jobs
  • Part 4: Requesting time & memory, Fairshare

• Resources for modeling and data analysis

  • Linux, bash, and Git (The big three!)
  • AWS cloud
  • Programming languages
  • Machine learning and data assimilation
  • Inverse modeling and methods
  • Introduction to Python, NumPy, SciPy, and more
  • Viewing and editing netCDF files

• Harvard-ACMG local resources

  • View the specialties of Harvard-ACMG group members (and add your specialties here!)
  • Transfer files to and from Cannon with Globus
  • Access local printers
  • Subscribe to email lists
  • Book the Jacob-group conference Room (P110E)
  • Book a classroom in SEAS
  • Add new links to external documents on this wiki

• Education materials for mentoring undergraduates

• Whom may I contact for assistance?

• Additional resources

Reporting incorrect or outdated content

Please use the Harvard-ACMG issue tracker to report any typos or outdated content. We strive to keep this information as current as possible.