allow data matrix or SummarizedExperiment as input to functions #5

	# Workflow derived from https://github.com/r-lib/actions/tree/v2/examples
	# Need help debugging build failures? Start at https://github.com/r-lib/actions#where-to-find-help
	on:
	push:
	branches: [master, devel]
	paths:
	- '.github/workflows/document.yaml'
	- 'R/**'
	pull_request:
	branches: [master, devel]
	release:
	types: [published]
	workflow_dispatch:

	name: document

	jobs:
	document:
	runs-on: ubuntu-latest
	# Only restrict concurrency for non-PR jobs
	concurrency:
	group: document-${{ github.event_name != 'pull_request' \|\| github.run_id }}
	cancel-in-progress: true
	env:
	GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
	steps:
	- name: Checkout repo
	uses: actions/checkout@v3
	with:
	fetch-depth: 0
	token: ${{ secrets.GH_DOCS }}

	- name: Setup R
	uses: r-lib/actions/setup-r@v2
	with:
	use-public-rspm: true

	- name: Install dependencies
	uses: r-lib/actions/setup-r-dependencies@v2
	with:
	extra-packages: any::roxygen2
	needs: roxygen2

	- name: Document
	run: roxygen2::roxygenise()
	shell: Rscript {0}

	- name: Commit and push changes
	run: \|
	git config --local user.name "$GITHUB_ACTOR"
	git config --local user.email "$GITHUB_ACTOR@users.noreply.github.com"
	git add man/\* NAMESPACE
	git commit -m "Update documentation" \|\| echo "No changes to commit"
	git pull --ff-only
	git push origin master \|\| echo "No changes to commit"

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