fix(GweInputData): large GWE models throwing stackoverflow error #3295
Workflow file for this run
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| name: MODFLOW 6 documentation | |
| on: | |
| push: | |
| paths-ignore: | |
| - '.github/workflows/release.yml' | |
| - '.github/workflows/ci.yml' | |
| - '.hpc/**' | |
| pull_request: | |
| branches: | |
| - master | |
| - develop | |
| paths-ignore: | |
| - '.github/workflows/release.yml' | |
| - '.hpc/**' | |
| env: | |
| PIXI_BETA_WARNING_OFF: true | |
| concurrency: | |
| group: ${{ github.workflow }}-${{ github.ref }} | |
| cancel-in-progress: true | |
| jobs: | |
| lint: | |
| name: Check format | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Checkout modflow6 | |
| uses: actions/checkout@v4 | |
| - uses: prefix-dev/setup-pixi@v0.8.1 | |
| with: | |
| pixi-version: v0.24.2 | |
| - name: Check spelling | |
| run: pixi run check-spelling | |
| rtd_build: | |
| name: Build ReadTheDocs | |
| needs: | |
| - lint | |
| runs-on: ubuntu-22.04 | |
| defaults: | |
| run: | |
| shell: bash -l {0} | |
| env: | |
| FC: gfortran | |
| FC_V: 12 | |
| steps: | |
| - name: Checkout modflow6 | |
| uses: actions/checkout@v4 | |
| with: | |
| path: modflow6 | |
| - name: Checkout modflow6-examples | |
| uses: actions/checkout@v4 | |
| with: | |
| repository: MODFLOW-USGS/modflow6-examples | |
| path: modflow6-examples | |
| - name: Checkout usgslatex | |
| uses: actions/checkout@v4 | |
| with: | |
| repository: MODFLOW-USGS/usgslatex | |
| path: usgslatex | |
| - name: Setup pixi | |
| uses: prefix-dev/setup-pixi@v0.8.1 | |
| with: | |
| pixi-version: v0.24.2 | |
| manifest-path: "modflow6/pixi.toml" | |
| - name: Custom pixi install | |
| working-directory: modflow6 | |
| run: pixi run install | |
| - name: Print python package versions | |
| working-directory: modflow6 | |
| run: pixi run pip list | |
| - name: Install TeX Live | |
| run: | | |
| sudo apt-get update | |
| sudo apt install texlive-science \ | |
| texlive-latex-extra \ | |
| texlive-font-utils \ | |
| texlive-fonts-recommended \ | |
| texlive-fonts-extra | |
| - name: Install USGS LaTeX style files and Univers font | |
| working-directory: usgslatex/usgsLaTeX | |
| run: sudo ./install.sh --all-users | |
| - name: Build MF6IO files from DFNs | |
| working-directory: modflow6 | |
| run: pixi run run-mf6ivar | |
| - name: Setup ${{ env.FC }} ${{ env.FC_V }} | |
| uses: fortran-lang/setup-fortran@v1 | |
| with: | |
| compiler: gcc | |
| version: ${{ env.FC_V }} | |
| - name: Cache modflow6 examples | |
| id: cache-examples | |
| uses: actions/cache@v4 | |
| with: | |
| path: modflow6-examples/examples | |
| key: modflow6-examples-${{ hashFiles('modflow6-examples/scripts/**') }} | |
| - name: Install extra Python packages | |
| if: steps.cache-examples.outputs.cache-hit != 'true' | |
| working-directory: modflow6 | |
| run: | | |
| pixi run pip install -r ../modflow6-examples/etc/requirements.pip.txt | |
| pixi run pip install -r ../modflow6-examples/etc/requirements.usgs.txt | |
| - name: Update FloPy | |
| if: steps.cache-examples.outputs.cache-hit != 'true' | |
| working-directory: modflow6/autotest | |
| run: pixi run update-flopy | |
| # the example models also need mf2005, triangle and gridgen | |
| - name: Install extra executables | |
| if: steps.cache-examples.outputs.cache-hit != 'true' | |
| uses: modflowpy/install-modflow-action@v1 | |
| with: | |
| subset: mf2005,triangle,gridgen | |
| - name: Build example models | |
| if: steps.cache-examples.outputs.cache-hit != 'true' | |
| working-directory: modflow6 | |
| shell: pixi run bash -e {0} | |
| run: | | |
| cd ../modflow6-examples/autotest | |
| pytest -v -n auto test_scripts.py --init | |
| ls -lh ../examples/ | |
| - name: Run benchmarks | |
| working-directory: modflow6 | |
| run: pixi run benchmark | |
| env: | |
| GITHUB_TOKEN: ${{ github.token }} | |
| - name: Show benchmarks | |
| working-directory: modflow6/distribution | |
| run: cat run-time-comparison.md | |
| - name: Upload benchmarks | |
| uses: actions/upload-artifact@v3 | |
| with: | |
| name: run-time-comparison | |
| path: modflow6/distribution/run-time-comparison.md | |
| - name: Collect deprecations | |
| working-directory: modflow6 | |
| run: pixi run deprecations | |
| - name: Show deprecations | |
| working-directory: modflow6/doc/mf6io/mf6ivar/md | |
| run: cat deprecations.md | |
| - name: Upload deprecations | |
| uses: actions/upload-artifact@v3 | |
| with: | |
| name: deprecations | |
| path: modflow6/doc/mf6io/mf6ivar/md/deprecations.md | |
| - name: Run sphinx | |
| working-directory: modflow6 | |
| run: pixi run sphinx | |
| - name: Upload RTD files | |
| uses: actions/upload-artifact@v3 | |
| with: | |
| name: rtd-files-for-${{ github.sha }} | |
| path: | | |
| modflow6/.build_rtd_docs/dev.rst | |
| modflow6/.build_rtd_docs/index.rst | |
| modflow6/.build_rtd_docs/mf6io.rst | |
| modflow6/.build_rtd_docs/_dev/ | |
| modflow6/.build_rtd_docs/_mf6io/ | |
| modflow6/.build_rtd_docs/_mf6run/ | |
| modflow6/.build_rtd_docs/_static/ | |
| - name: Build PDF documents | |
| working-directory: modflow6 | |
| run: pixi run build-docs | |
| - name: Upload PDF documents | |
| uses: actions/upload-artifact@v3 | |
| with: | |
| name: mf6io.pdf | |
| path: | | |
| modflow6/mf6io.pdf | |
| modflow6/ReleaseNotes.pdf | |
| modflow6/zonebudget.pdf | |
| modflow6/converter_mf5to6.pdf | |
| modflow6/mf6suptechinfo.pdf | |
| modflow6/mf6examples.pdf | |
| rtd_trigger: | |
| name: rtd-trigger | |
| needs: rtd_build | |
| runs-on: ubuntu-22.04 | |
| if: github.repository_owner == 'MODFLOW-USGS' && github.event_name == 'push' | |
| steps: | |
| - name: Checkout repo | |
| uses: actions/checkout@v4 | |
| - name: Trigger RTDs build on push to repo branches | |
| uses: dfm/rtds-action@v1 | |
| with: | |
| webhook_url: ${{ secrets.MF6_RTDS_WEBHOOK_URL }} | |
| webhook_token: ${{ secrets.MF6_RTDS_WEBHOOK_TOKEN }} | |
| commit_ref: ${{ github.ref }} | |
| doxygen_build: | |
| runs-on: ubuntu-22.04 | |
| env: | |
| working-directory: .build_rtd_docs | |
| common-directory: .github/common | |
| branch-name: ${GITHUB_REF##*/} | |
| defaults: | |
| run: | |
| shell: bash | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Print branch name | |
| run: echo ${{env.branch-name}} | |
| - name: Install doxygen and graphviz | |
| run: | | |
| sudo apt-get update | |
| sudo apt-get install doxygen graphviz | |
| - name: Setup pixi | |
| uses: prefix-dev/setup-pixi@v0.8.1 | |
| with: | |
| pixi-version: v0.24.2 | |
| - name: Custom pixi install | |
| run: pixi run install | |
| - name: Print python package versions | |
| run: pixi run pip list | |
| - name: update MODFLOW 6 version | |
| run: pixi run update-version | |
| - name: run doxygen | |
| run: doxygen | |
| working-directory: ${{env.working-directory}} | |
| - name: upload pages artifact | |
| uses: actions/upload-pages-artifact@v2 | |
| with: | |
| path: ${{env.working-directory}}/html | |
| pages_deploy: | |
| if: github.ref == 'refs/heads/develop' && github.event_name == 'push' | |
| needs: doxygen_build | |
| permissions: | |
| pages: write | |
| id-token: write | |
| environment: | |
| name: github-pages | |
| url: ${{ steps.deployment.outputs.page_url }} | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Deploy to GitHub Pages | |
| id: deployment | |
| uses: actions/deploy-pages@v3 |