conda_build.yml

name: starfish build

# This workflow is triggered on pushes to the repository.
on:
  push:
    branches:
      - main  # Trigger the workflow on push to the main branch

jobs:
  build:
    # This job runs on the latest Ubuntu runner hosted by GitHub Actions
    runs-on: ubuntu-latest

    steps:
    - name: Checkout Repository
      uses: actions/checkout@v2
      # This step checks out a copy of your repository.

    - name: Setup Miniconda
      uses: conda-incubator/setup-miniconda@v2
      with:
        activate-environment: starfish_build_env
        python-version: 3.8  # Specify the version of Python you need
        auto-activate-base: true
      # This step sets up Miniconda with a specific Python version.

    - name: Conda Build
      run: |
        conda config --add channels bioconda
        conda config --add channels conda-forge
        conda install -c conda-forge conda-build conda-verify gcc_linux-64
        conda build .
      # This step installs conda-build and then uses it to build your Conda package.
    
    - name: Upload starfish Package
      run: |
        conda install -c anaconda anaconda-client
        PACKAGE_FILES=($(find /usr/share/miniconda/conda-bld/linux-64/ -name "starfish*.tar.bz2"))
        NUM_FILES=${#PACKAGE_FILES[@]}
    
        if [ "$NUM_FILES" -eq 0 ]; then
          echo "Error: No starfish package files found."
          exit 1
        elif [ "$NUM_FILES" -gt 1 ]; then
          echo "Error: Multiple starfish package files found."
          exit 1
        fi
    
        echo "Uploading ${PACKAGE_FILES[0]}..."
        conda run anaconda -t ${{ secrets.ANACONDA_API_TOKEN }} upload --force "${PACKAGE_FILES[0]}"