run_tests_cli.yml

---
name: 'CLI: tests'

on:

    push:
        branches:
        -   main
    pull_request:
        branches:
        -   main

jobs:
    tests_cli:
        runs-on: ubuntu-22.04
        if: github.repository_owner == 'cpp-lln-lab'
        strategy:
            fail-fast: false
            matrix:
                python-version: ['3.8', '3.9', '3.10', '3.11', '3.12']
        steps:
        -   name: Install dependencies
            run: |
                sudo apt-get -y -qq update
                sudo apt-get -y install octave liboctave-dev
        -   name: Info
            run: octave --version
        -   name: Install Deno
            uses: denoland/setup-deno@v1
            with:
                deno-version: v1.x
        -   uses: actions/setup-python@v5
            name: Set up Python ${{ matrix.python-version }}
            with:
                python-version: ${{ matrix.python-version }}
        -   name: Clone bidspm
            uses: actions/checkout@v4
            with:
                submodules: recursive
                fetch-depth: 0
        -   name: Install validators
            run: |
                make install
                pip install .[test]
        -   name: Run tests and generate coverage report
            run: |
                coverage erase
                coverage run --source src -m pytest
                coverage xml
        # -   name: Code coverage
        #     uses: codecov/codecov-action@v4
        #     with:
        #         file: coverage.xml
        #         flags: cli
        #         name: codecov-cli
        #         fail_ci_if_error: false

    boutiques:
        runs-on: ubuntu-22.04
        if: github.repository_owner == 'cpp-lln-lab'
        steps:
        -   name: Clone bidspm
            uses: actions/checkout@v4
            with:
                submodules: recursive
                fetch-depth: 0
        -   name: Install Deno
            uses: denoland/setup-deno@v1
            with:
                deno-version: v1.x
        -   uses: actions/setup-python@v5
            name: Set up Python
            with:
                python-version: '3.12'

        -   name: Install dependencies
            run: |
                sudo apt-get -y -qq update
                sudo apt-get -y install unzip wget git-annex
        -   name: Install datalad
            run: |
                python -m pip install --upgrade pip setuptools
                pip install datalad

        -   name: Get data
            run: |
                cd demos/openneuro/
                make data_ds000114_verbal

        -   name: Install SPM
            run: git clone https://github.com/spm/spm12.git --depth 1
        -   name: Install octave
            run: |
                sudo apt-get -y -qq update
                sudo apt-get -y install \
                    octave \
                    liboctave-dev\
                    octave-common \
                    octave-io \
                    octave-image \
                    octave-signal \
                    octave-statistics
        -   name: Compile SPM
            run: |
                make -C spm12/src PLATFORM=octave distclean
                make -C spm12/src PLATFORM=octave
                make -C spm12/src PLATFORM=octave install
                octave $OCTFLAGS --eval "addpath(fullfile(pwd, 'spm12')); savepath();"
        -   name: Info
            run: octave --version

        -   name: Install
            run: |
                make install
                pip install boutiques

        -   name: Run via boutiques
            run: |
                bosh exec launch --no-container  boutiques/bidspm_3.1.1.json boutiques/invocation_smooth.json
                bosh exec launch --no-container  boutiques/bidspm_3.1.1.json boutiques/invocation_stats.json