NOTICE: FULL O2 Cluster Outage, January 3 - January 10th

O2 will be completely offline for a planned HMS IT data center relocation from Friday, Jan 3, 6:00 PM, through Friday, Jan 10

  • on Jan 3 (5:30-6:00 PM): O2 login access will be turned off.
  • on Jan 3 (6:00 PM): O2 systems will start being powered off.

This project will relocate existing services, consolidate servers, reduce power consumption, and decommission outdated hardware to improve efficiency, enhance resiliency, and lower costs.

Specifically:

  • The O2 Cluster will be completely offline, including O2 Portal.
  • All data on O2 will be inaccessible.
  • Any jobs still pending when the outage begins will need to be resubmitted after O2 is back online.
  • Websites on O2 will be completely offline, including all web content.

More details at: https://harvardmed.atlassian.net/l/cp/1BVpyGqm & https://it.hms.harvard.edu/news/upcoming-data-center-relocation

Intro to R & Bioconductor

Owned by Former user (Deleted)
Last updated: Apr 20, 2022 by Gaby Rodriguez
2 min read

Class Material

Connect to O2

ssh -Y -L $PORT:127.0.0.1:$PORT <your_HMS_ID>@o2.hms.harvard.edu

Managing your R packages on O2

Create an R Personal Library

# Create a library on your HOME ("~") directory mkdir ~/R-4.1.1 # Create an .Renviron file echo 'R_LIBS_USER="~/R-4.1.1"'> $HOME/.Renviron

Running RStudio on O2

For more in-depth details, please visit our wiki page - RStudio on O2.

Load RStudio modules

module load rstudio_launcher/1.0 module load gcc/6.2.0 module load R/4.1.1 module load git/2.9.5

Launch RStudio

intro.R

Installing R Packages

Comprehensive R Archive Network (CRAN)

Bioconductor

GitHub

Digital Accessibility