MAINT: ensure unix line endings (artefact from initial windows develo… #27
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name: CI | |
on: | |
workflow_dispatch: | |
schedule: | |
- cron: "35 4 */6 * *" # Every 6 days. | |
pull_request: | |
push: | |
jobs: | |
build-iqtree: | |
name: Fetch or Build IQ-TREE 2 Static Library on ${{matrix.os}} | |
runs-on: ${{ matrix.os }} | |
strategy: | |
matrix: | |
os: [ubuntu-latest, macos-13, macos-14] # Intel linux, Intel Mac, ARM Mac | |
steps: | |
- uses: "actions/checkout@v4" | |
with: | |
fetch-depth: 0 | |
submodules: recursive | |
- name: Get IQ-TREE 2 SHA | |
run: | | |
cd iqtree2 | |
IQ_TREE_2_SHA=$(git rev-parse HEAD) | |
echo "IQ_TREE_2_SHA=${IQ_TREE_2_SHA}" >> $GITHUB_ENV | |
- uses: actions/cache@v4 | |
id: cache | |
with: | |
key: libiqtree-${{ matrix.os }}-${{ env.IQ_TREE_2_SHA }} | |
path: src/piqtree2/_libiqtree/libiqtree2.a | |
lookup-only: true | |
- name: Build IQ-TREE | |
if: steps.cache.outputs.cache-hit != 'true' | |
run: | | |
if [[ "${{ matrix.os }}" == "ubuntu-latest" ]]; then | |
sudo ./build_tools/before_all_linux.sh | |
else | |
./build_tools/before_all_mac.sh | |
fi | |
tests: | |
name: Run Tests with Python ${{matrix.python-version}} on ${{matrix.os}} | |
needs: build-iqtree | |
runs-on: ${{ matrix.os }} | |
strategy: | |
matrix: | |
os: [ubuntu-latest, macos-13, macos-14] # Intel linux, Intel Mac, ARM Mac | |
python-version: ["3.10", "3.11", "3.12"] | |
steps: | |
- uses: "actions/checkout@v4" | |
with: | |
fetch-depth: 0 | |
submodules: recursive | |
- uses: "actions/setup-python@v5" | |
with: | |
python-version: "${{ matrix.python-version }}" | |
- uses: actions/cache/restore@v4 | |
with: | |
key: libiqtree-${{ matrix.os }}-${{ env.IQ_TREE_2_SHA }} | |
path: src/piqtree2/_libiqtree/libiqtree2.a | |
fail-on-cache-miss: true | |
- name: Run Nox Testing | |
run: | | |
pip install nox | |
nox -s test-${{ matrix.python-version }} -- --cov --cov-report=lcov:${{matrix.os}}-${{matrix.python-version}}.lcov --cov-report=term --cov-append --durations=20 | |
- name: Coveralls Parallel | |
if: matrix.os != 'macos-13' | |
uses: coverallsapp/github-action@v2 | |
with: | |
parallel: true | |
github-token: ${{secrets.github_token}} | |
flag-name: run-${{matrix.python-version}}-${{matrix.os}} | |
file: "${{matrix.os}}-${{matrix.python-version}}.lcov" | |
finish: | |
name: "Finish Coveralls" | |
needs: tests | |
runs-on: ubuntu-latest | |
steps: | |
- name: Coveralls Finished | |
uses: coverallsapp/github-action@v2 | |
with: | |
github-token: ${{ secrets.github_token }} | |
parallel-finished: true |