AmpReconResources

This repository contains any auxillary data required to run AmpRecon pipeline

Getting started

To use this submodule in your project use these commands:

# Add the scripts submodule as a folder called "modules"
git submodule add https://gitlab.com/malariagen/dae/ampreconresources.git
git commit -am "added scripts submodule"
# push optional at this stage, but definitely necessary after a few commits have been made
git push

Cloning a repository that uses this submodule

git clone --recurse-submodules <your repo>

# Or if you've already cloned and just need to pull the submodules
submodule update --init --recursive

Updating this submodule to latest commit on your repository

Create a new feature branch specifying the module you want to create/update. After your work is done, create a pull request vs master. Once that's been reviewed and merged, run:

git submodule update --remote

A word of warning, this will update all submodules in your repo (if you have more than one). To only update this submodule, run the following instead:

cd modules
git fetch
git merge origin/master
cd ..