Installation

1. Clone repo from github

📘

Quick install

git clone https://github.com/Mykrobe-tools/mykrobe-atlas-cli.git mykrobe
cd mykrobe

Download pre-built probesets

wget -O mykrobe-data.tar.gz https://goo.gl/DXb9hN && \
tar -zxvf mykrobe-data.tar.gz && rm -fr src/mykrobe/data && \
mv mykrobe-data src/mykrobe/data

pip install

2. Install requirements

mccortex

🚧

Important!

NB: You must install the version of mccortex that comes with this repository
It is a fork of the original mccortex repo

MongoDB

If you want to build new variant probesets for predictor you need to have a mongodb >3.0 process running in the background.