Beatson OS X Bootstrapper

This collection of scripts are used to quickly set up new OS X computers in the Beatson Lab.

• Installs tcsh as the default shell
• Installs software managers Homebrew and Conda
• Sets OS X system settings
• Installs general software and tools using Homebrew
• Installs managed bioinformatics tool environment using Conda

Usage

• Download all files to a local directory
• (Optional) edit brew.file and/or osx_defaults.sh for personal preference
• In terminal, run bootstrap_beatson.sh
• If prompted, restart computer

File Information

• bootstrap_beatson.sh
  • the actual bootstrap script. Run this on a new computer to bootstrap.
• brew.file
  • contains the homebrew recipes and casks to install. Collection of useful command line tools and general software applications. Called from bootstrap_beatson.sh. Can be updated to add new programs as desired and
• conda_installer.sh
  • Used to setup the Conda environments managed in the Beatson Ansible repository. Rerun to update or replace local environments (interactive).
• osx_defaults.sh
  • a separate script that sets a number of operation system systems for improved experience. Called from bootstrap_beatson.sh. Edit this as desired (a number of additional tweaks are documented within and commented out by default).
• readme.md
  • this file

Author

Initially developed by Thom Cuddihy (QFAB, 2017) while embedded with the Beatson Lab