feat: Add UPGMA, Neighbor-Joining, and RF-distance to cli tool #749

	name: CI

	on:
	push:
	branches: [ master ]
	pull_request:
	branches: [ master ]

	jobs:
	Formatting:
	runs-on: ubuntu-latest
	steps:
	- name: Checkout repository
	uses: actions/checkout@v2

	- name: Install stable toolchain
	uses: actions-rs/toolchain@v1
	with:
	toolchain: stable
	override: true
	components: rustfmt

	- name: Check format
	run: cargo fmt -- --check

	Linting:
	runs-on: ubuntu-latest
	steps:
	- name: Checkout repository
	uses: actions/checkout@v2

	- name: Install stable toolchain
	uses: actions-rs/toolchain@v1
	with:
	toolchain: stable
	override: true
	components: clippy

	- name: Lint with clippy
	uses: actions-rs/clippy-check@v1
	with:
	token: ${{ secrets.GITHUB_TOKEN }}

	Testing:
	needs: Formatting
	runs-on: ubuntu-latest
	steps:
	- name: Checkout repository
	uses: actions/checkout@v2

	- name: Install stable toolchain
	uses: actions-rs/toolchain@v1
	with:
	toolchain: stable
	override: true

	- uses: Swatinem/[email protected]

	- name: Install system dependencies
	run: \|
	sudo apt-get install --yes libgsl0-dev

	- name: Install test dependencies
	run: \|
	export PATH="/usr/share/miniconda/bin:$PATH"
	conda create -c bioconda -c conda-forge -n dependencies starcode bcftools

	- name: Run cargo test
	run: \|
	export PATH="/usr/share/miniconda/bin:$PATH"
	source activate dependencies
	cargo test -- --test-threads=1

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