Merge branch 'qa'

# To get started with Dependabot version updates, you'll need to specify which

# package ecosystems to update and where the package manifests are located.

# Please see the documentation for all configuration options:

# https://docs.github.com/code-security/dependabot/dependabot-version-updates/configuration-options-for-the-dependabot.yml-file

version: 2

updates:

  - package-ecosystem: "github-actions" # See documentation for possible values

    directory: "/" # Workflow files stored in the default location of `.github/workflows`

    schedule:

      interval: "weekly"

      run:

        shell: bash -l {0}

    steps:

      - uses: actions/checkout@v3

      - uses: conda-incubator/setup-miniconda@v2

      - uses: actions/checkout@v4

      - uses: prefix-dev/setup-pixi@v0.8.2

        with:

          auto-update-conda: true

          mamba-version: "*"

          environment-file: environment.yml

          pixi-version: v0.50.2

          manifest: pyproject.toml

      - name: Verify docstrings

        run: pydocstyle --convention=numpy src/

        run: pixi run pydocstyle --convention=numpy src/

      - name: Install ui test requirements

        run: playwright install

      - name: Install iMars3d in editable mode

        run: pip install -e .

        run: pixi run playwright install

      - name: Tests without data repository

        uses: coactions/setup-xvfb@v1

        with:

          run: |

          python -m pytest --cov --cov-report=xml --cov-report=term -m "not datarepo"

            pixi run pytest -m 'not datarepo' --tb=short -v

      - name: Upload coverage to Codecov

        uses: codecov/codecov-action@v3

  build-wheel:

    runs-on: ubuntu-latest

    defaults:

      run:

        shell: bash -l {0}

    steps:

      - uses: actions/checkout@v3

      - uses: conda-incubator/setup-miniconda@v2

        with:

          auto-update-conda: true

          mamba-version: "*"

          environment-file: environment.yml

      - name: Build Wheel

        run: python -m build --no-isolation --wheel

      - name: Check Wheel Contents

        run: check-wheel-contents .

        uses: codecov/codecov-action@v5

    steps:

    - name: Checkout repository

      uses: actions/checkout@v3

      uses: actions/checkout@v4

    # Initializes the CodeQL tools for scanning.

    - name: Initialize CodeQL

      uses: github/codeql-action/init@v2

      uses: github/codeql-action/init@v3

      with:

        languages: python

    - name: Perform CodeQL Analysis

      uses: github/codeql-action/analyze@v2

      uses: github/codeql-action/analyze@v3

      with:

        category: "/language:python"

          state: "pending"

          sha: "${{ github.sha }}"

          target_url: "${{ github.server_url }}/${{ github.repository }}/actions/runs/${{ github.run_id }}"

      - uses: actions/checkout@v3

      - uses: actions/checkout@v4

        with:

          submodules: true

          lfs: true

      - uses: conda-incubator/setup-miniconda@v2

      - uses: prefix-dev/setup-pixi@v0.8.2

        with:

          auto-update-conda: true

          miniforge-version: latest

          environment-file: environment.yml

          pixi-version: v0.50.2

          manifest: pyproject.toml

      - name: Tests with data repository

        run: python -m pytest -m datarepo

        run: pixi run pytest -m datarepo

      - name: Update job status

        uses: Sibz/github-status-action@v1

        if: ${{ always() && github.event_name == 'workflow_dispatch' }}

      run:

        shell: bash -l {0}

    steps:

      - uses: actions/checkout@v3

      - uses: conda-incubator/setup-miniconda@v2

      - uses: actions/checkout@v4

      - uses: prefix-dev/setup-pixi@v0.8.2

        with:

          auto-update-conda: true

          mamba-version: "*"

          environment-file: environment.yml

          pixi-version: v0.50.2

          manifest: pyproject.toml

      - name: Build Conda Package

        run: |

          # boa uses mamba to resolve dependencies

          cd conda.recipe

          VERSION=$(versioningit ../) conda mambabuild --output-folder . -c conda-forge . || exit 1

          conda verify noarch/imars3d*.tar.bz2 || exit 1

          # Build conda package using pixi

          pixi run conda-build

      - name: Deploy to Anaconda

        shell: bash -l {0}

        if: startsWith(github.ref, 'refs/tags/v')

          CONDA_LABEL="main"

          if [ "${IS_RC}" = "true" ]; then CONDA_LABEL="rc"; fi

          echo pushing ${{ github.ref }} with label $CONDA_LABEL

          anaconda upload --label $CONDA_LABEL conda.recipe/noarch/imars3d*.tar.bz2

  trigger-deploy:

    runs-on: ubuntu-22.04

    needs: [build-conda]

    # only trigger deploys from protected branches

    if: ${{ github.ref_protected || github.ref_type == 'tag' }}

    steps:

      - name: Determine Environment

        uses: neutrons/branch-mapper@v2

        id: conda_env_name

        with:

          prefix: imars3d

      - name: Trigger deploy

        id: trigger

        uses: eic/trigger-gitlab-ci@v2

        with:

          url: https://code.ornl.gov

          token: ${{ secrets.GITLAB_TRIGGER_TOKEN }}

          project_id: 11848

          ref_name: main

          variables: |

            PLAY="update"

            CONDA_ENV="${{ steps.conda_env_name.outputs.name }}"

      - name: Annotate commit

        uses: peter-evans/commit-comment@v2

        with:

          body: |

            GitLab pipeline for ${{ steps.conda_env_name.outputs.name }} has been submitted for this commit: ${{ steps.trigger.outputs.web_url }}

          pixi run anaconda upload --label $CONDA_LABEL *.conda

# End of https://www.toptal.com/developers/gitignore/api/python,macos,linux,windows,visualstudiocode

.vscode/settings.json

_version.py

# Pixi

.pixi/

pixi.lock

*.conda

pyproject.toml.bak

# node modules

node_modules/

package-lock.json

package.json

.claude/settings.local.json