
Purpose
=======
This document is what I'd call a "ridealong" -- it's intended a quick 
repository of observations and hints that I kept as annotation to the project 
README and install guides I found online. It's not a substitute for your own 
research and good judgment. That said, I found the whole process relatively
straightforward, so the other purpose here is to encourage Mac users to just 
give it a try.

Software Setup
===================

- Python and R
I initially thought I would use my IDEs (R Studio and Spyder via Anaconda) for 
a lot of this project, but it turned out that command line was the easier way 
to go when running the python scripts.  

- iGraph. I installed this as part of all the python lib installs rather than
dealing with it standalone. It's "python-igraph" in that case.

- Python libraries install. These were almost all present in Spyder/Anaconda, 
except for python-igraph and sklearn. Just calling install didn't work, so I
ended up installing them via pip -- conda didn't work. Here's an interesting 
link about conda vs pip: 
https://jakevdp.github.io/blog/2017/12/05/installing-python-packages-from-jupyter/
   Later on, I ended up installing homebrew package manager to get the final
make to work -- I could've probably saved a bit of time by installing it 
earlier.

- R libraries install. This worked fine from inside R studio, but later in
the process I ended up using Terminal to run the scripts from the chapter
build process itself.

Data Cleaning
===============
I copy-pasted all these commands into Terminal, and they just worked. Yay.

Running Analyses
================
To get infomap, I had to clone with:
git clone http://github.com/mapequation/infomap

My old Macbook Air handled the computational load just fine, so don't be scared 
about the memory warnings in the general README. 

The Gephi analysis did run forever (I didn't stay up long enough to watch it 
do its thing, if you want to know what kind of forever I mean), but it stopped 
actually updating or changing after a while. Just hit stop when the rainbow 
jelly ball starts trembling instead of really moving around. I never did get
it to look like the one in the paper TBH but I took that to be aesthetic.

Chapter-Building
================
Here's where I found I needed to install homebrew, so that I could install all 
the moreutils (sponge!) and run the compile.

The LateX build process spit out a ton of errors -- not just the usual whining
about underfull hbox badness, but also stopping on various reference compiling
errors. Never fear: if you page through them, it'll work in the end.

And done!
-Kaylea Champion 
2.23.2018
kaylea@uw.edu

