Nightly Build #346

	name: Nightly Build

	on:
	schedule:
	- cron: "59 23 * * *"
	workflow_dispatch:

	permissions: write-all

	jobs:
	build-and-publish:
	name: Nightly Report Build
	runs-on: ubuntu-latest
	steps:

	- uses: actions/checkout@v2
	with:
	persist-credentials: false # otherwise, the token used is the GITHUB_TOKEN, instead of your personal access token.
	fetch-depth: 0 # otherwise, there would be errors pushing refs to the destination repository.

	- name: Set up Java
	uses: actions/setup-java@v3
	with:
	java-version: '17'
	distribution: temurin

	- name: Get robot.jar
	run: \|
	wget https://github.com/ontodev/robot/releases/download/v1.9.5/robot.jar -O robot/robot.jar
	chmod +x robot/robot.jar

	- name: Set up Python 3.9
	uses: actions/setup-python@v2
	with:
	python-version: 3.9

	- name: Install Project Dependencies
	run: \|
	pip install -r requirements.txt

	- name: Templates generation
	run: \|
	PYTHONPATH=./src:$PYTHONPATH python src/cl_coverage.py

	- name: Ontology generation
	run: \|
	cd robot
	java -jar robot.jar --prefixes template_prefixes.json template --template ../templates/cellxgene_subset.tsv --output ../cellxgene_subset.owl

	- name: Commit files
	run: \|
	git config --local user.email "github-actions[bot]@users.noreply.github.com"
	git config --local user.name "github-actions[bot]"
	git commit -a -m "Nightly build"

	- name: Push changes
	uses: ad-m/github-push-action@master
	with:
	branch: ${{ github.head_ref }}

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