From 0927321ded47d80576550c1ecaebcc46f930c2d4 Mon Sep 17 00:00:00 2001
From: JulioV <JulioV@users.noreply.github.com>
Date: Wed, 11 Dec 2019 18:44:37 -0500
Subject: [PATCH] Fix installation doc layout

---
 docs/usage/installation.rst | 62 +++++++++++++++++++------------------
 1 file changed, 32 insertions(+), 30 deletions(-)

diff --git a/docs/usage/installation.rst b/docs/usage/installation.rst
index 4b85b127..90ff9d6e 100644
--- a/docs/usage/installation.rst
+++ b/docs/usage/installation.rst
@@ -1,48 +1,50 @@
 Installation
 ===============
 
-	- Install MySQL
+This instructions have been tested on MacOS Cataline and Ubuntu 16.04. If you find a problem, please report it.
 
-       - brew install mysql
-	   - brew services start mysql
+Install MySQL
 
-	- Install R:
+- ``brew install mysql``
+- ``brew services start mysql``
 
-       - brew install r
+Install R:
 
-	- Install miniconda
+- ``brew install r``
 
-       - brew cask install miniconda
+Install miniconda:
 
-	- Clone our repo
+- ``brew cask install miniconda`` (for Mac)
+	
+Clone our repo:
 
-       - git clone https://github.com/JulioV/moshi-aware.git
+- ``git clone https://github.com/JulioV/moshi-aware.git``
 
-	- Create a python virtual environment
+Create a python virtual environment:
 
-       - conda env create -f environment.yml
-       - conda init zsh/bash
-       - Restart terminal if necessary
-       - conda activate moshi-env
+- ``conda env create -f environment.yml``
+- ``conda init zsh/bash``
+- Restart terminal if necessary
+- ``conda activate moshi-env``
 
-	- Install r packages:
+Install r packages and virtual environment:
 
-       - snakemake packrat_install
-       - snakemake packrat_init
-       - snakemake packrat_restore
+- ``snakemake packrat_install``
+- ``snakemake packrat_init``
+- ``snakemake packrat_restore``
 
-	- Configure the participants to analyze
+Configure the participants to analyze:
 
-       - Add a file per participant. Name it with the label for that participant (p01 for example): "/data/external/pxx" (no extension is necessary)
-       - Add a line with the device_id for that participant as it appears on the db
-       - Add a line with the mobile platform (Android, or iOS)
+- Add a file per participant and name it with the label for that participant, no extension is necessary: ``/data/external/pxx``
+- Add a line with the device_id for that participant as it appears on the db
+- Add a line with the mobile platform (Android, or iOS)
 
-	- Configure the db connection
+Configure the db connection:
 
-       - Create an empty .env file in the root folder
-       - Add and complete the following lines
-			[MY_GROUP_NAME]
-			user=MyUSER
-			password=MyPassword
-			host=MyIP
-			port=3306
+- Create an empty .env file in the root folder
+- Add and complete the following lines
+    | ``[MY_GROUP_NAME]``
+    | ``user=MyUSER``
+    | ``password=MyPassword``
+    | ``host=MyIP``
+    | ``port=3306``