Merge pull request #51 from gph82/select_by_GRN #202
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# This workflow will install Python dependencies, run tests and lint with a variety of Python versions | |
# For more information see: https://help.github.com/actions/language-and-framework-guides/using-python-with-github-actions | |
name: Python [3.7,3.8,3.9,3.10,3.11,3.12] MacOs | |
on: | |
push: | |
branches: [ master ] | |
pull_request: | |
branches: [ master ] | |
workflow_dispatch: | |
env: | |
BEZIER_NO_EXTENSION: true | |
OPENBLAS_NUM_THREADS: 1 | |
MKL_NUM_THREADS : 1 | |
jobs: | |
build: | |
runs-on: ${{ matrix.os }} | |
strategy: | |
fail-fast: false | |
matrix: | |
os: [macos-latest] | |
python-version: [3.7, 3.8, 3.9, '3.10', '3.11','3.12'] | |
# Proposed workaround for legacy versions, see | |
# https://github.com/actions/setup-python/issues/856 and | |
# https://github.com/actions/runner-images/issues/9770#issuecomment-2085623315 | |
exclude: # Python < v3.8 does not support Apple Silicon ARM64. | |
- python-version: "3.7" | |
os: macos-latest | |
include: # So run those legacy versions on Intel CPUs. | |
- python-version: "3.7" | |
os: macos-13 | |
steps: | |
- uses: actions/checkout@v4 | |
- name: Set up Python ${{ matrix.python-version }} | |
uses: actions/setup-python@v4 | |
with: | |
python-version: ${{ matrix.python-version }} | |
- name: Install dependencies | |
run: | | |
python -m pip install --upgrade pip | |
pip install flake8 pytest pytest-cov pytest-xdist | |
- name: Install package Python lt 3.12 | |
if: matrix.python-version != '3.12' | |
run: | | |
pip install --upgrade pip | |
pip install --upgrade setuptools | |
pip install -e . | |
pip freeze | |
- name: Install package Python eq 3.12 | |
if: matrix.python-version == '3.12' | |
run: | | |
pip install --upgrade pip | |
pip install --upgrade setuptools | |
pip install bezier | |
pip install mdtraj --use-deprecated=legacy-resolver | |
pip install -e . --use-deprecated=legacy-resolver | |
pip freeze | |
- name: Test with pytest and coverage macos | |
continue-on-error: true | |
run: | | |
echo -e '[run]\nomit = *dihedrals.py,*contact_matrix.py' > .coveragerc | |
pytest -vs --cov=./ --cov-report=xml --disable-warnings --cov-config=.coveragerc | |
- name: Upload coverage to Codecov | |
uses: codecov/codecov-action@v4 | |
with: | |
token: ${{ secrets.CODECOV_TOKEN }} | |
#directory: ./coverage/reports/ | |
flags: unittests | |
env_vars: OS,PYTHON | |
name: codecov-umbrella | |
fail_ci_if_error: true | |
#path_to_write_report: ./coverage/codecov_report.gz | |