Add github workflow for checking notebooks #7

	name: Execute R notebooks

	on:
	pull_request:
	workflow_dispatch:
	# run once a week
	schedule:
	- cron: "0 0 * * 0"

	jobs:
	build:
	runs-on: ubuntu-latest

	steps:
	- id: checkout
	uses: actions/checkout@v3

	- id: python-setup
	name: Set up Python
	uses: actions/setup-python@v2
	with:
	python-version: '3.11'

	- id: install-juptyer
	name: Install Juptyer
	run: \|
	python -m pip install --upgrade pip
	pip install jupyter

	- id: r-setup
	name: Set up R
	uses: r-lib/actions/setup-r@v2

	#- id: r-dependencies
	# name: Install R dependencies
	# uses: r-lib/actions/setup-renv@v2

	- id: r-dependencies
	name: Install r dependencies
	run: \|
	R -e 'install.packages("renv")'
	R -e 'renv::restore()'
	R -e 'install.packages("IRkernel")'
	R -e 'IRkernel::installspec()'

	- id: execute-bioscales
	name: Execute bioscales notebook
	run: \|
	jupyter nbconvert --execute --to notebook --inplace bioscales_biogeochemical_metadata/R/bioscales_metadata.ipynb

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