tests_octave.yml

---
name: tests octave

# Uses the cron schedule for github actions
#
# https://docs.github.com/en/free-pro-team@latest/actions/reference/events-that-trigger-workflows#scheduled-events
#
# ┌───────────── minute (0 - 59)
# │ ┌───────────── hour (0 - 23)
# │ │ ┌───────────── day of the month (1 - 31)
# │ │ │ ┌───────────── month (1 - 12 or JAN-DEC)
# │ │ │ │ ┌───────────── day of the week (0 - 6 or SUN-SAT)
# │ │ │ │ │
# │ │ │ │ │
# │ │ │ │ │
# * * * * *

env:
    OCTFLAGS: --no-gui --no-window-system --silent

concurrency:
    group: ${{ github.workflow }}-${{ github.ref }}
    cancel-in-progress: true

on:
    push:
        branches: [main]
    pull_request:
        branches: [main]
    schedule:
    -   cron: 0 0 1,15 * *

  # Allows you to run this workflow manually from the Actions tab
    workflow_dispatch:

jobs:

    test:

        if: github.repository_owner == 'cpp-lln-lab'

        runs-on: ubuntu-latest

        strategy:
            matrix:
                test_type: [system]
                script: [moae, facerep, fmriprep]
                include:
                -   test_type: unit
                    mode: fast
                -   test_type: unit
                    mode: slow
            fail-fast: false

        steps:

        -   name: ${{ matrix.test_type }} test
            if: matrix.test_type == 'system'
            run: echo ${{ matrix.test_type }} test ${{ matrix.script }}

        -   name: Install dependencies
            run: |
                sudo apt-get -y -qq update
                sudo apt-get -y install unzip wget git-annex

        -   name: Install Deno
            uses: denoland/setup-deno@v1
            with:
                deno-version: v1.x

        -   name: Install python
            uses: actions/setup-python@v5
            with:
                python-version: '3.11'

        -   name: Clone bidspm
            uses: actions/checkout@v4
            with:
                submodules: recursive
                fetch-depth: 0

        -   name: Install datalad
            run: |
                python -m pip install --upgrade pip setuptools
                pip install datalad

        -   name: Install validators
            run: make install

        -   name: Install SPM
            run: |
                git clone https://github.com/spm/spm12.git --depth 1

        -   name: Get moae fmriprep data from OSF
            run: |
                mkdir -p demos/MoAE/inputs/
                cd demos/MoAE/inputs/
                wget https://osf.io/vufjs/download
                unzip download
                mv moae_fmriprep fmriprep

        -   name: Get data for testing QA
            run: |
                cd demos/openneuro/
                make data_ds000114_mriqc
                make data_ds000114_fmriprep

        -   name: Prepare test data
            run: |
                cd tests
                make data

        -   name: Install Moxunit and MOcov
            run: |
                git clone https://github.com/MOxUnit/MOxUnit.git --depth 1
                git clone https://github.com/MOcov/MOcov.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
                make -C MOxUnit install
                make -C MOcov install

        -   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: Run fast unit tests Octave
            if: matrix.test_type == 'unit' && matrix.mode == 'fast'
            run: |
                octave $OCTFLAGS --eval "addpath(fullfile(pwd, 'tests', 'utils')); savepath();"
                octave $OCTFLAGS --eval "bidspm(); cd demos/MoAE; download_moae_ds(true);"
                cd .github/workflows
                octave $OCTFLAGS --eval "tests_octave;"

        -   name: Run slow unit tests Octave
            if: matrix.test_type == 'unit' && matrix.mode == 'slow'
            run: |
                octave $OCTFLAGS --eval "addpath(fullfile(pwd, 'tests', 'utils')); savepath();"
                octave $OCTFLAGS --eval "bidspm(); cd demos/MoAE; download_moae_ds(true);"
                cd .github/workflows
                octave $OCTFLAGS --eval " global SLOW; SLOW=true; tests_octave;"

        -   name: Code coverage
            if: matrix.test_type == 'unit'
            uses: codecov/codecov-action@v4
            with:
                file: coverage.xml
                flags: octave
                name: codecov-octave_${{ matrix.mode }}
                fail_ci_if_error: false
                # token: ${{ secrets.CODECOV_TOKEN }}

        -   name: Run system tests octave ${{ matrix.script }}
            if: matrix.test_type == 'system'
            run: |
                cd /home/runner/work/bidspm/bidspm/.github/workflows
                octave $OCTFLAGS --eval "run system_tests_${{ matrix.script }};"