build-test.yml

# based on https://github.com/qiime2/q2-diversity-lib/blob/master/.github/workflows/lint-build-test.yml
name: build-test
# build on every PR and commit to master
on:
  pull_request:
  push:
    branches:
      - master

jobs:
  lint:
    runs-on: ubuntu-latest
    steps:
    - uses: actions/checkout@v2
    - name: set up python 3.6
      uses: actions/setup-python@v1
      with:
        python-version: 3.6
    - name: lint it
      run: python -m pip install --upgrade pip
    - name: lint
      run: |
        pip install -q flake8
        flake8 scripts/*.py
  build-and-test:
    runs-on: ubuntu-latest
    container:
      image: docker://quay.io/qiime2/core:2020.11
    steps:
    - uses: actions/checkout@v2
    - name: exercise
      run: |
        pip install redbiom
        export AG_DEBUG=True
        export TMI_NAME=test
        export TMI_TITLE=test
        export STUDIES=10317
        export ENV_PACKAGE=human-gut
        export TMI_DATATYPE=WGS
        export QIIME_VERSION=2020.11
        cd scripts; bash submit_all.sh