build-and-test-MACS3-non-x64.yml

# This workflow will install Python dependencies, run tests and lint with a single version of Python
# For more information see: https://help.github.com/actions/language-and-framework-guides/using-python-with-github-actions

name: MACS3 CI non x64

on: 
  push:
    paths-ignore:
      - 'docs/**'
      - '**.md'
      - 'ChangeLog'
      - '.github/workflows/**'
      - '!.github/workflows/build-and-test-MACS3-non-x64.yml'
  pull_request:
    paths-ignore:
      - 'docs/**'
      - '**.md'
      - 'ChangeLog'
      - '.github/workflows/**'
      - '!.github/workflows/build-and-test-MACS3-non-x64.yml'

jobs:
  build_job:
    runs-on: ubuntu-22.04
    name: Build on ${{ matrix.arch }} with Python 3.10
    strategy:
      matrix:
        include:
          - arch: aarch64

    steps:
      - name: Checkout MACS
        uses: actions/checkout@v4
        with:
          submodules: 'true'

      - name: Set up arch and run
        uses: uraimo/run-on-arch-action@v2
        id: build
        with:
          arch: ${{ matrix.arch }}
          distro: ubuntu22.04

          githubToken: ${{ github.token }}

          # The shell to run commands with in the container
          shell: /bin/bash

          # Create an artifacts directory
          setup: |
            chmod a+rw ${PWD}
        
          # Mount the current working directory (with checked-out codes) as /MACS3 in the container
          dockerRunArgs: |
            -v "${PWD}:/MACS3"

          # Create an artifacts directory on runner

          # Install some dependencies in the container. This speeds up builds if
          # you are also using githubToken. Any dependencies installed here will
          # be part of the container image that gets cached, so subsequent
          # builds don't have to re-install them. The image layer is cached
          # publicly in your project's package repository, so it is vital that
          # no secrets are present in the container state or logs.
          install: |
            # install dependencies
            apt-get update -qq -y
            # We install the dependencies for compiling and installing
            # the python libraries that MACS3 depends on.
            apt-get install -yq apt-utils bc libblas3 liblapack3 libblas-dev liblapack-dev libopenblas-dev pkg-config python3 python3-pip python3-venv python3-wheel meson ninja-build cmake procps zlib1g zlib1g-dev gfortran
          run: |
            echo `uname -a`
            cd ~
            
            # let's create virtualenv
            python3 -m venv macsenv

            # activate macsenv
            source macsenv/bin/activate
            
            # cd to source code directory
            cd /MACS3

            # pip will be upgraded
            python3 -m pip install --upgrade pip

            # install dependencies
            if [ -f requirements.txt ]; then
                python3 -m pip install -r requirements.txt;
            fi

            # install MACS3
            python3 -m pip install .

            # output versions of installed libraries
            python3 -m pip freeze

            # run test
            pytest --runxfail && cd test && ./cmdlinetest macs3

      - name: Archive cmdlinetest results
        if: always()
        uses: actions/upload-artifact@v4
        with:
          name: cmdlinetest-hmmratac-results-${{ matrix.arch }}
          path: temp/macs3_run_hmmratac/