Update GSL on GitHub Actions CI #180
Workflow file for this run
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| name: ODE-toolbox build | |
| on: [push, pull_request] | |
| jobs: | |
| static_checks: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Checkout ODE-toolbox code | |
| uses: actions/checkout@v4 | |
| - name: Setup Python | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: 3.9 | |
| - name: Install apt dependencies | |
| run: | | |
| sudo apt update | |
| sudo apt install pkg-config python3-all-dev | |
| - name: Install Python dependencies | |
| run: | | |
| python -m pip install --upgrade pip pytest pycodestyle codecov pytest-cov wheel | |
| python -m pip install -r requirements.txt | |
| export PYTHON_VERSION=`python -c "import sys; print('.'.join(map(str, [sys.version_info.major, sys.version_info.minor])))"` | |
| echo "Python version detected:" | |
| echo $PYTHON_VERSION | |
| - name: Install ODE-toolbox | |
| run: | | |
| echo PYTHONPATH=`pwd` >> $GITHUB_ENV | |
| python setup.py install | |
| - name: Static code style analysis | |
| run: | | |
| python3 -m pycodestyle $GITHUB_WORKSPACE -v --ignore=E241,E501,E303,E714,E713,E714,E252 --exclude=$GITHUB_WORKSPACE/doc,$GITHUB_WORKSPACE/.eggs,$GITHUB_WORKSPACE/build,$GITHUB_WORKSPACE/.git,$GITHUB_WORKSPACE/odetoolbox.egg-info,$GITHUB_WORKSPACE/dist | |
| build: | |
| needs: [static_checks] | |
| runs-on: ubuntu-latest | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| with_gsl: ["0", "1"] | |
| sympy_version: ["==1.4", "!=1.5,!=1.5.*,!=1.6rc1,!=1.6rc2,!=1.6,!=1.6.*,!=1.10,!=1.10.*,!=1.13,!=1.13.*"] | |
| steps: | |
| - name: Checkout ODE-toolbox code | |
| uses: actions/checkout@v4 | |
| - name: Setup Python | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: 3.9 | |
| - name: Install apt dependencies | |
| run: | | |
| sudo apt update | |
| sudo apt install pkg-config python3-all-dev | |
| - name: Install GSL | |
| if: ${{ matrix.with_gsl == '1' }} | |
| run: | | |
| sudo apt remove libgsl27 libgsl-dev # remove system-wide GSL version that is installed by default | |
| cd .. | |
| wget https://mirror.ibcp.fr/pub/gnu/gsl/gsl-2.7.tar.gz # this should be "gsl-latest.tar.gz", but there is an issue with GSL 2.8 (see https://github.com/pygsl/pygsl/issues/62) | |
| tar -xzf gsl-2.7.tar.gz | |
| cd gsl-2.7 | |
| ./configure && make && sudo make install | |
| - name: Install Python dependencies | |
| run: | | |
| python -m pip install --upgrade pip pytest pycodestyle codecov pytest-cov wheel | |
| python -m pip install numpy | |
| if [ "${{ matrix.with_gsl }}" == "1" ]; then python3 -m pip install -v https://github.com/pygsl/pygsl/archive/refs/tags/v2.4.1.tar.gz ; fi # this should be "pip install pygsl", but see https://github.com/pygsl/pygsl/issues/59 | |
| python -m pip install -r requirements.txt | |
| export PYTHON_VERSION=`python -c "import sys; print('.'.join(map(str, [sys.version_info.major, sys.version_info.minor])))"` | |
| echo "Python version detected:" | |
| echo $PYTHON_VERSION | |
| pip uninstall --yes sympy | |
| pip install sympy${{ matrix.sympy_version }} | |
| echo "Using sympy version:" | |
| python -c "import sympy; print(sympy.__version__)" | |
| - name: Install ODE-toolbox | |
| run: | | |
| echo PYTHONPATH=`pwd` >> $GITHUB_ENV | |
| python setup.py install | |
| - name: Run unit tests | |
| run: | | |
| echo "[run]" > .coveragerc | |
| echo "omit = tests/*" >> .coveragerc | |
| echo >> .coveragerc | |
| python -m pytest -s -o log_cli=true -o log_cli_level="DEBUG" --cov=. --cov-config=.coveragerc tests | |
| - name: Run codecov | |
| run: | | |
| codecov |