#1351 - Support for user-defined kernels that operate on DoFs #7665
Workflow file for this run
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| # ----------------------------------------------------------------------------- | |
| # BSD 3-Clause License | |
| # | |
| # Copyright (c) 2020-2024, Science and Technology Facilities Council. | |
| # All rights reserved. | |
| # | |
| # Redistribution and use in source and binary forms, with or without | |
| # modification, are permitted provided that the following conditions are met: | |
| # | |
| # * Redistributions of source code must retain the above copyright notice, this | |
| # list of conditions and the following disclaimer. | |
| # | |
| # * Redistributions in binary form must reproduce the above copyright notice, | |
| # this list of conditions and the following disclaimer in the documentation | |
| # and/or other materials provided with the distribution. | |
| # | |
| # * Neither the name of the copyright holder nor the names of its | |
| # contributors may be used to endorse or promote products derived from | |
| # this software without specific prior written permission. | |
| # | |
| # THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS | |
| # "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT | |
| # LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS | |
| # FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE | |
| # COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, | |
| # INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, | |
| # BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; | |
| # LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER | |
| # CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT | |
| # LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN | |
| # ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE | |
| # POSSIBILITY OF SUCH DAMAGE. | |
| # ----------------------------------------------------------------------------- | |
| # Author A. R. Porter, STFC Daresbury Lab | |
| # Modified by R. W. Ford, STFC Daresbury Lab | |
| # Modified by A. J. Voysey, Met Office | |
| # Modified by J. Henrichs, Bureau of Meteorology | |
| # Modified by N. Nobre, STFC Daresbury Lab | |
| # 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: PSyclone tests and examples | |
| on: | |
| push: | |
| branches: [ master ] | |
| pull_request: | |
| branches: [ master ] | |
| workflow_dispatch: | |
| jobs: | |
| markdown-link-check: | |
| if: ${{ github.repository != 'stfc/PSyclone-mirror' }} | |
| # Check all markdown files for dead links. See the 'mlc_config.json' | |
| # file in the project root directory for configuration. | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@master | |
| - uses: gaurav-nelson/github-action-markdown-link-check@v1 | |
| with: | |
| use-verbose-mode: 'yes' | |
| config-file: '.github/workflows/mlc_config.json' | |
| sphinx-link-check: | |
| if: ${{ github.repository != 'stfc/PSyclone-mirror' }} | |
| # Check all Sphinx documentation for dead links. | |
| runs-on: ubuntu-latest | |
| env: | |
| GITHUB_PR_NUMBER: ${{ github.event.number }} | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - uses: actions/setup-python@v4 | |
| - run: sudo apt-get install -y graphviz doxygen | |
| - run: python -m pip install --upgrade pip | |
| - run: pip install .[doc] | |
| - run: cd doc/user_guide; make html | |
| - run: cd doc/developer_guide; make html | |
| - run: cd doc/reference_guide; make html | |
| - run: cd doc/psyad/user_guide; make html | |
| - run: cd doc; python -m http.server & | |
| - run: cd doc/user_guide; make linkcheck | |
| - run: cd doc/developer_guide; make linkcheck | |
| - run: cd doc/reference_guide; make linkcheck | |
| - run: cd doc/psyad/user_guide; make linkcheck | |
| dev-doctest: | |
| if: ${{ github.repository != 'stfc/PSyclone-mirror' }} | |
| # Check doctests of developer's guide | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - uses: actions/setup-python@v4 | |
| - run: python -m pip install --upgrade pip | |
| - run: pip install .[doc] | |
| # Sphinx since version 7.2 (7.2.0/1/2) aborts with | |
| # exec('from sympy import *', global_dict) | |
| # File "<string>", line 1, in <module> | |
| # AttributeError: module 'sympy' has no attribute 'external' | |
| # when it is run without creating the documentation first. | |
| # So till this is fixed in Sphinx, we trigger the creation | |
| # of the html documents before actually running doctest | |
| - run: cd doc/developer_guide; make html; make doctest | |
| build: | |
| if: ${{ github.repository != 'stfc/PSyclone-mirror' }} | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| python-version: [3.7, 3.8, 3.12] | |
| steps: | |
| - uses: actions/checkout@v3 | |
| with: | |
| submodules: recursive | |
| # This is required to get the commit history for merge commits for | |
| # the ci-skip check below. | |
| fetch-depth: '0' | |
| - name: Check for [skip ci] in commit message | |
| uses: mstachniuk/ci-skip@v1 | |
| with: | |
| # This setting causes the tests to 'fail' if [skip ci] is specified | |
| fail-fast: true | |
| commit-filter: '[skip ci]' | |
| - 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 | |
| # Some of the examples use Jupyter. We need to keep IPython to | |
| # below 8.0 as we still run the test suite with Python 3.7. | |
| pip install "ipython>=7.0,<8.0" jupyter | |
| # Uncomment the below to use the submodule version of fparser rather | |
| # than the latest release from pypi. | |
| # pip install external/fparser | |
| pip install .[test] | |
| - name: Lint with flake8 | |
| run: | | |
| # Stop the build if there are Python syntax errors or undefined names. | |
| # See PSyclone/setup.cfg for configuration of this check. | |
| flake8 --count --show-source --statistics . | |
| - name: Run examples | |
| run: | | |
| ( make -j 2 -C examples transform > /dev/null ) | |
| ( make -C examples notebook ) | |
| - name: Run tutorials | |
| run: | | |
| ( make -C tutorial/practicals transform > /dev/null ) | |
| ( make -C tutorial/notebooks notebook ) | |
| - name: Test with pytest | |
| if: ${{ !(matrix.python-version == 3.8) }} | |
| run: | | |
| locale | |
| pytest -n auto --cov=psyclone --cov-report=xml src/psyclone/tests | |
| - name: Test with pytest and C Locale | |
| if: ${{ matrix.python-version == 3.8 }} | |
| run: | | |
| locale | |
| pytest -n auto --cov=psyclone --cov-report=xml src/psyclone/tests | |
| env: | |
| LC_ALL: C | |
| LANG: C | |
| - name: Upload coverage to Codecov with GitHub Action | |
| uses: codecov/codecov-action@v4 | |
| env: | |
| CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }} | |
| with: | |
| verbose: true |