updates.md

Updating software

These are the things I do every other week to keep my computers' software up to date.

brew update
brew upgrade

R -e 'update.packages(ask=FALSE)'
R -e 'update.packages(ask=FALSE, checkBuilt=TRUE)'
R -e 'source("https://bioconductor.org/biocLite.R");biocLite()'

rvm get stable
gem update

conda update conda
conda update anaconda

npm update npm -g
npm update -g
npm install -g npm@latest

sudo tlmgr update --self
sudo tlmgr update --all

Also useful:

• brew outdated shows what packages need to be upgraded

• brew cleanup removes old versions of things; brew cleanup -n just shows you what would be cleaned up with out actually removing anything.