hsp2-pip-install-test.yml

---
name: Python application

on:  # yamllint disable-line rule:truthy
    push:
        branches: [master]
    pull_request:
        branches: [master, develop, develop-specact]

permissions:
    contents: read

jobs:
    lint:
        runs-on: ubuntu-latest
        steps:
            - uses: actions/checkout@v4
            - name: Set up Python
              uses: actions/setup-python@v4
              with:
                  python-version: '3.11'
                  cache: pip
            - name: Install dependencies
              run: |
                  pip install flake8
            - name: Lint with flake8
              run: |
                  # stop the build if there are Python syntax errors or
                  # undefined names
                  flake8 . --count --select=E9,F63,F7,F82 --ignore=F821 \
                    --show-source --statistics --exclude=build/*
                  # exit-zero treats all errors as warnings.
                  # The GitHub editor is 127 chars wide
                  flake8 . --count --exit-zero --max-complexity=10 \
                    --max-line-length=127 --statistics

    test-pytest:
        runs-on: ubuntu-latest
        continue-on-error: true
        strategy:
            matrix:
                python-version: ['3.9', '3.10', '3.11', '3.12']
                pandas-version: ['']
                include:
                    - python-version: '3.11'
                      pandas-version: pandas>2.0
                      coverage: true
                    - python-version: '3.11'
                      pandas-version: pandas>1.5,<2.0
        steps:
            - uses: actions/checkout@v4
            - name: Set up Python
              uses: actions/setup-python@v4
              with:
                  python-version: ${{ matrix.python-version }}
                  cache: pip
            - name: Install hsp2
              run: |
                  # install the hsp2 executable
                  pip install .[dev]
            - if: ${{ matrix.pandas-version }}
              run: pip install "${{ matrix.pandas-version }}"
            - if: ${{ matrix.coverage }}
              run: |
                  # python coverage
                  NUMBA_DISABLE_JIT=1 pytest --cov --cov-branch --cov-report \
                      term-missing
            - if: ${{ ! matrix.coverage }}
              run: pytest

    test-cmd:
        runs-on: ubuntu-latest
        continue-on-error: true
        strategy:
            matrix:
                python-version: ['3.9', '3.10', '3.11', '3.12']
        steps:
            - uses: actions/checkout@v4
            - name: Set up Python
              uses: actions/setup-python@v4
              with:
                  python-version: ${{ matrix.python-version }}
                  cache: pip
            - name: Install hsp2
              run: |
                  # install the hsp2 executable
                  pip install .
            - name: Run hsp2
              run: |
                  # TODO: find much shorter test case.
                  hsp2 import_uci \
                      ./tests/test10/HSP2results/test10.uci \
                      _temp_test10.h5
                  hsp2 run _temp_test10.h5