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Get started on Mac OS X

First things

  1. Update your Mac OS to the latest version
  2. Install Xcode (free) and the command line tools

Cool software you need

This guide is written for someone running Mac OS X who is comfortable with running Bash commands in the Terminal. If you don't know what your PATH is or how to change it, or what your .bashrc is, it may be difficult to follow the rest of this guide. Consult Matt Might's blog for getting started with Unix before going any further.

Install Homebrew and use it to install some great apps:

brew install git curl tree python3

Homebrew will symlink these into /usr/local/bin/. If you don't already /usr/local/bin/ in your PATH, add it now.

To install the required Python packages, use

pip3 install numpy scipy pandas 
pip install numpy scipy pandas

Note you really must install for both Python 2 and Python 3.

Clone and build Rosetta locally

Change into the directory you want to install Rosetta into (recommendation: use ~/Applications) and run

curl -Ok https://raw.githubusercontent.com/RosettaCommons/rosetta_clone_tools/master/get_rosetta.sh
bash get_rosetta.sh main

to get the main source repo (add tools at the end if you want the tools and/or demos if you want the demos).

To compile (=build) Rosetta, try:

cd Rosetta/main/source
./scons.py cxx=clang mode=release bin

And add the following to your .bashrc:

export PATH=$PATH:/usr/local/bin:~/Applications/Rosetta/main/source/bin
export ROSETTA3_DB=~/Applications/Rosetta/main/database

This will allow you to call Rosetta apps (like rosetta_scripts) from anywhere in your shell, including scripts, without a path prefix, like

rosetta_scripts.macosclangrelease @ flags

It is recommended that you install into ~/Applications (your user Applications folder) rather than /Applications (the system Applications folder).

Good job, you're done!