build.yml

name: Build conda env
on: 
  workflow_call:
    inputs:
      environment:
        required: true
        type: string
jobs:
  build:
    name: Build environment
    runs-on: ubuntu-latest
    steps:
      - name: Build environment
        uses: appleboy/ssh-action@v0.1.7
        with:
          host: gadi.nci.org.au
          username: ${{secrets.GADI_USER}}
          key: ${{secrets.DEPLOY_KEY}}
          command_timeout: 120m
          script: |
            export SCRIPT_DIR=${{secrets.GADI_REPO_PATH}}/scripts
            eval $( grep ADMIN_DIR $SCRIPT_DIR/install_config.sh )
            eval $( grep JOB_LOG_DIR $SCRIPT_DIR/install_config.sh )
            cd $JOB_LOG_DIR
            qsub -N build_${{ inputs.environment }} -lncpus=1,mem=20GB,walltime=2:00:00,jobfs=50GB,storage=gdata/xp65+scratch/iq82+gdata/hh5+scratch/hh5+gdata/tm70 -v SCRIPT_DIR,CONDA_ENVIRONMENT=${{ inputs.environment }} -P iq82 -q copyq -Wblock=true -Wumask=037 "${SCRIPT_DIR}"/build.sh