feat: Add UPGMA, Neighbor-Joining, and RF-distance to cli tool #749
Workflow file for this run
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
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 | |