Add note to README about NERSC installation (#103) #94
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name: Tests | |
on: | |
push: | |
branches: [ master ] | |
pull_request: | |
branches: [ master ] | |
concurrency: | |
group: ${{ github.workflow }}-${{ github.ref }} | |
cancel-in-progress: true | |
env: | |
FORCE_COLOR: 3 | |
CONDA_ENV: ./environment.yml | |
jobs: | |
lint: | |
name: Run Linters | |
runs-on: ubuntu-latest | |
steps: | |
- uses: actions/checkout@v3 | |
with: | |
fetch-depth: 0 | |
- name: Run black | |
uses: psf/black@stable | |
- name: Run flake8 | |
uses: py-actions/flake8@v2 | |
with: | |
path: "tjpcov tests" | |
tests: | |
needs: lint | |
name: Check Python ${{ matrix.python-version }} on ${{ matrix.runs-on }} | |
runs-on: ${{ matrix.runs-on }} | |
defaults: | |
run: | |
# IMPORTANT: this is needed to make sure that the conda environment is auto activated | |
shell: bash -el {0} | |
strategy: | |
fail-fast: false | |
matrix: | |
python-version: ["3.8", "3.11"] | |
runs-on: [ubuntu-latest, macos-latest] | |
steps: | |
- uses: actions/checkout@v3 | |
with: | |
fetch-depth: 0 | |
- name: Set up mamba | |
uses: conda-incubator/setup-miniconda@v2 | |
with: | |
channels: conda-forge | |
python-version: ${{ matrix.python-version }} | |
show-channel-urls: true | |
auto-update-conda: true | |
use-mamba: true | |
activate-environment: tjpcov | |
miniforge-version: latest | |
miniforge-variant: Mambaforge | |
- name: Cache Date | |
id: get-date | |
run: echo "today=$(/bin/date -u '+%Y%m%d')" >> $GITHUB_OUTPUT | |
- name: Check for cached environment | |
uses: actions/cache@v3 | |
id: cache | |
env: | |
# Increase this value to reset cache if etc/example-environment.yml has not changed | |
CACHE_NUMBER: 0 | |
with: | |
path: ${{env.CONDA}}/envs | |
key: | |
${{runner.os}}.${{runner.arch}}.mamba-py.${{matrix.python-version}}.${{hashFiles('pyproject.toml')}}.${{hashFiles('environment.yml')}}.${{steps.get-date.outputs.today}}.${{env.CACHE_NUMBER}} | |
- name: Install environment packages | |
if: steps.cache.outputs.cache-hit != 'true' | |
run: | | |
export MAMBA_NO_BANNER=1 | |
mamba env update --file ${{ env.CONDA_ENV }} | |
- name: Install TJPCov | |
run: | | |
pip install .[nmt] --no-deps | |
- name: Install mpi4py into cache | |
# If this is cached, re-add mpi4py | |
if: steps.cache.outputs.cache-hit == 'true' | |
run: | | |
mamba install -y openmpi | |
pip install -U mpi4py --no-cache-dir --no-deps | |
- name: Run Tests | |
run: coverage run --source=tjpcov -m pytest -vv tests/ | |
- name: Run MPI Tests (OpenMPI) | |
run: | | |
mpiexec -n 2 pytest -vv tests/test_mpi.py | |
mamba remove -y openmpi | |
pip uninstall -y mpi4py | |
- name: Run MPI Tests (mpich) | |
run: | | |
mamba install -y mpich | |
pip install -U mpi4py --no-cache-dir --no-deps | |
mpiexec -n 2 pytest -vv tests/test_mpi.py | |
mamba remove -y mpich | |
pip uninstall -y mpi4py | |
- name: Collect coverage report | |
uses: coverallsapp/github-action@v2 | |
with: | |
github-token: ${{ secrets.GITHUB_TOKEN }} | |
flag-name: run-${{ join(matrix.*, '-') }} | |
parallel: true | |
finish: | |
needs: tests | |
name: Collect all coverage reports and publish to coveralls.io | |
runs-on: ubuntu-latest | |
steps: | |
- name: Collect all coverage reports and publish to coveralls.io | |
uses: coverallsapp/github-action@master | |
with: | |
carryforward: "run-3.8-ubuntu-latest,run-3.11-ubuntu-latest,run-3.8-macos-latest,run-3.11-macos-latest" | |
github-token: ${{ secrets.GITHUB_TOKEN }} | |
parallel-finished: true |