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GitHub Action live and deploy #30

GitHub Action live and deploy

GitHub Action live and deploy #30

Workflow file for this run

name: Cobaya Tests
# for the moment only runs on "action* branches". Coverage/pypi not yet set up.
on: [ push, pull_request ]
env:
COBAYA_INSTALL_SKIP_BASE: planck_2015,CamSpec2021,2018_highl_CamSpec,unbinned,keck
COBAYA_PACKAGES_PATH: ../packages
jobs:
should_run:
# only run on pushes that are not also part of PR
runs-on: ubuntu-latest
outputs:
run_tests: github.event_name == 'push' || ${{ steps.check.outputs.run_tests }}
steps:
- name: Check if tests should run
id: check
if: github.event_name == 'push'
uses: actions/github-script@v7
with:
github-token: ${{secrets.GITHUB_TOKEN}}
script: |
const { data: prs } = await github.rest.pulls.list({
owner: context.repo.owner,
repo: context.repo.repo,
head: `${context.repo.owner}:${context.ref.replace('refs/heads/', '')}`,
state: 'open'
});
const shouldRun = prs.length === 0;
core.setOutput('run_tests', shouldRun ? 'true' : 'false');
tests:
needs: should_run
runs-on: ${{ matrix.os }}
if: github.event_name == 'pull_request' || needs.should_run.outputs.run_tests == 'true'
strategy:
fail-fast: false
matrix:
include:
- name: "Anaconda Python (flake8, no numba)"
os: ubuntu-latest
pydist: "ANACONDA"
cobaya_skip: classy,polychord
- name: "Latest Python 3.x (with polychord)"
os: ubuntu-latest
python-version: 3.x
mpi: openmpi
cobaya_skip: classy,polychord
- name: "OS X Python 3.8 (with classy)"
os: macos-latest
python-version: 3.8
mpi: openmpi
cobaya_skip: polychord
- name: "Windows Python 3.12"
os: windows-latest
python-version: 3.12
mpi: intelmpi
cobaya_skip: classy,polychord
steps:
- name: Set COBAYA_INSTALL_SKIP
shell: bash
run: echo "COBAYA_INSTALL_SKIP=$COBAYA_INSTALL_SKIP_BASE,${{ matrix.cobaya_skip }}" >> $GITHUB_ENV
- run: ln -s $(which gfortran-14) /usr/local/bin/gfortran
if: matrix.os == 'macos-latest'
- run: |
gfortran --version
- uses: actions/checkout@v4
with:
fetch-depth: 0
- name: Set up Python ${{ matrix.python-version }}
if: matrix.pydist != 'ANACONDA'
uses: actions/setup-python@v5
with:
python-version: ${{ matrix.python-version }}
- name: Set up Miniconda
if: matrix.pydist == 'ANACONDA'
uses: conda-incubator/setup-miniconda@v3
with:
auto-activate-base: false
activate-environment: tests-environment
environment-file: tests-environment.yml
- name: flake8 Lint
if: matrix.pydist == 'ANACONDA'
shell: bash -el {0}
run: |
flake8 cobaya --max-line-length 90 --select=E713,E704,E703,E714,E10,E11,E20,E22,E23,E25,E27,E301,E302,E304,E9,F405,F406,F5,F6,F7,F8,W1,W2,W3,W6 --show-source --statistics
- name: Install dependencies (pip)
if: matrix.pydist != 'ANACONDA'
run: |
pip install -r requirements.txt pytest-xdist pytest-cov flaky matplotlib coverage iminuit numba camb
- name: Install mpi
if: matrix.pydist != 'ANACONDA' && matrix.os != 'windows-latest'
uses: mpi4py/setup-mpi@v1
with:
mpi: ${{ matrix.mpi }}
- name: Install mpi4py
if: matrix.pydist != 'ANACONDA' && matrix.os != 'windows-latest'
run: |
pip install mpi4py -i https://pypi.anaconda.org/mpi4py/simple
# - name: Cache dependencies
# uses: actions/cache@v4
# with:
# path: |
# ${{ env.COBAYA_PACKAGES_PATH }}/data/
# key: ${{ env.COBAYA_INSTALL_SKIP }}
# enableCrossOsArchive: true
- name: Run cobaya install and tests
shell: bash -el {0}
run: |
coverage run --parallel-mode -m cobaya.install polychord --debug
coverage run --parallel-mode -m pytest tests/ -n auto -k "not cosmo" --skip-not-installed --no-flaky-report
coverage run --parallel-mode -m cobaya.install cosmo-tests --no-progress-bars --debug --skip-global
pytest tests/ --cov -vv -s -k "cosmo" -n 2 --skip-not-installed --no-flaky-report
- name: Run MPI tests
if: matrix.os != 'windows-latest'
shell: bash -el {0}
run: |
mpiexec -np 2 --oversubscribe coverage run --parallel-mode -m pytest -m mpi tests/ --no-flaky-report
- name: Run external likelihood tests
shell: bash -el {0}
run: |
git clone --depth=1 https://github.com/CobayaSampler/example_external_likelihood
pip install ./example_external_likelihood --quiet
coverage run --parallel-mode -m unittest test_package.tests.test
# - name: Upload coverage to Codecov
# uses: codecov/codecov-action@v4
# with:
# token: ${{ secrets.CODECOV_TOKEN }}
deploy:
needs: tests
runs-on: ubuntu-latest
if: github.repository_owner == 'CobayaSampler' && github.event_name == 'push' && startsWith(github.ref, 'refs/tags/')
permissions:
id-token: write
steps:
- uses: actions/checkout@v4
- name: Set up Python
uses: actions/setup-python@v5
- name: Install dependencies
run: |
python -m pip install -U pip
python -m pip install -U build twine
- name: Build package
run: python -m build --sdist
- name: Publish package
uses: pypa/gh-action-pypi-publish@release/v1