liat.yml

name: Liat Workflow

on:
  push:
    branches:
      - liats/wip/ci_cd

permissions:
  id-token: write
  contents: read

jobs:
  create-conda-env:
    runs-on: ubuntu-latest
    container:
      image: amazonlinux:2
    steps:
    # Install tar and gzip for code checkout
    - name: Install tar
      run: yum install -y tar gzip

    - name: Checkout Code
      uses: actions/checkout@v3  # Checks out the repository under $GITHUB_WORKSPACE.

    - name: Install conda
      continue-on-error: true
      run: |
        curl -sS -O https://repo.anaconda.com/miniconda/Miniconda3-latest-Linux-x86_64.sh
        bash Miniconda3-latest-Linux-x86_64.sh -b -u -p $HOME/miniconda

    - name: Create conda environment
      run : |
        export PATH=$HOME/miniconda/bin:$PATH
        conda init bash
        # conda create -q -n test-env python=3.10 > /dev/null
        # conda init bash > /dev/null
        # conda activate test-env
        # conda install pheno-utils

    - name: Configure AWS Credentials
      uses: aws-actions/configure-aws-credentials@v3
      with:
        role-to-assume: arn:aws:iam::081569964966:role/github_cicd
        aws-region: eu-west-1

    - name: Create and Upload Artifact to S3
      run: |
        # Example of creating a tar.gz archive and uploading it
        echo "Uploading artifact to S3"
        # tar -czvf artifact.tar.gz /path/to/your/files
        # aws s3 cp artifact.tar.gz s3://YOUR_S3_BUCKET_NAME/path/to/upload/