Gender normalization + geo_loc_name updates #57
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# 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 3.8 | |
uses: actions/setup-python@v1 | |
with: | |
python-version: 3.8 | |
- 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 |