Improvements for consistency #339
Workflow file for this run
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name: unit-tests | |
on: | |
push: | |
branches: | |
- main | |
- dev | |
pull_request: | |
branches: | |
- main | |
- dev | |
jobs: | |
unit-tests: | |
runs-on: ubuntu-20.04 | |
container: | |
image: hopkinsidd/flepimop:latest-dev | |
options: --user root | |
steps: | |
- name: Checkout | |
uses: actions/checkout@v3 | |
with: | |
lfs: true | |
- name: Set up Rprofile | |
run: | | |
cp build/docker/Docker.Rprofile $HOME/.Rprofile | |
cp /home/app/.bashrc $HOME/.bashrc | |
shell: bash | |
- name: Install the gempyor package | |
run: | | |
source /var/python/3.10/virtualenv/bin/activate | |
python -m pip install --upgrade pip | |
python -m pip install flepimop/gempyor_pkg/ | |
shell: bash | |
- name: Install local R packages | |
run: Rscript build/local_install.R | |
shell: bash | |
- name: Run gempyor tests | |
run: | | |
source /var/python/3.10/virtualenv/bin/activate | |
cd flepimop/gempyor_pkg | |
pytest -s | |
shell: bash | |
- name: Run flepicommon tests | |
run: | | |
setwd("flepimop/R_packages/flepicommon") | |
devtools::test(stop_on_failure=TRUE) | |
shell: Rscript {0} | |
- name: Run inference tests | |
run: | | |
setwd("flepimop/R_packages/inference") | |
devtools::test(stop_on_failure=TRUE) | |
shell: Rscript {0} | |
# - name: Run integration tests | |
# env: | |
# CENSUS_API_KEY: ${{ secrets.CENSUS_API_KEY }} | |
# run: | | |
# Rscript build/local_install.R | |
# cd test | |
# source /var/python/3.10/virtualenv/bin/activate | |
# pytest run_tests.py | |
# shell: bash |