update rcmdcheck workflow #49

	on:
	push:
	branches:
	- main
	pull_request:
	branches:
	- main

	name: test-coverage

	jobs:

	test-coverage:


	runs-on: ubuntu-20.04

	env:
	R_REMOTES_NO_ERRORS_FROM_WARNINGS: true
	RSPM: "https://packagemanager.rstudio.com/cran/__linux__/focal/latest"
	GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}

	if: "!(contains(github.event.head_commit.message, 'ci skip')\|\|contains(github.event.head_commit.message, 'skip ci'))"
	steps:

	- uses: actions/checkout@v2

	- uses: r-lib/actions/setup-r@v1

	- uses: r-lib/actions/setup-pandoc@v1

	- name: Query dependencies
	run: \|
	install.packages('remotes')
	saveRDS(remotes::dev_package_deps(dependencies = TRUE), ".github/depends.Rds", version = 2)
	shell: Rscript {0}

	- name: Cache R packages
	uses: actions/cache@v1
	with:
	path: ${{ env.R_LIBS_USER }}
	key: covr-r-${{ hashFiles('.github/depends.Rds') }}
	restore-keys: covr-r-

	- name: Install system dependencies
	run: \|
	while read -r cmd
	do
	eval sudo $cmd
	done < <(Rscript -e 'writeLines(remotes::system_requirements("ubuntu", "20.04"))')

	- name: Install dependencies
	run: \|
	install.packages(c("remotes"))
	remotes::install_deps(dependencies = TRUE)
	remotes::install_cran("covr")
	shell: Rscript {0}

	# https://pypi.org/project/test-github-actions/
	- name: Set up Python
	uses: actions/setup-python@v2
	with:
	python-version: '3.x'

	- name: Python dependencies
	run:
	python -m pip install --upgrade pip
	pip install sphinx myst-parser sphinx-rtd-theme recommonmark

	- name: Test coverage
	run: covr::codecov()
	shell: Rscript {0}

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