Merge pull request #1086 from tmooney/update_cwltool #5

	name: Update Wiki Documentation

	on:
	push:
	branches: [ master ]
	workflow_dispatch:

	jobs:
	update_documentation:
	if: ${{ github.repository == 'genome/analysis-workflows' }}
	runs-on: ubuntu-latest

	steps:
	- name: Set up Python
	uses: actions/setup-python@v2
	with:
	python-version: 3.7
	- name: Install dependencies
	run: \|
	python -m pip install --upgrade pip
	python -m pip install 'setuptools>=18.5'
	python -m pip install 'cwltool==1.0.20181217162649'
	python -m pip install 'ruamel.yaml==0.15.77'
	python -m pip install 'mdutils==1.0.0'
	python -m pip install 'PyYAML==5.1.2'
	- name: Create CWL documentation
	env:
	WIKI_ACCESS_TOKEN: ${{secrets.WIKI_ACCESS_TOKEN}}
	run: \|
	git clone "https://${WIKI_ACCESS_TOKEN}@github.com/genome/analysis-workflows.wiki.git"
	cd analysis-workflows.wiki/
	git config user.email "[email protected]"
	git config user.name "APipe Tester"
	python scripts/create_cwl_documentation.py
	git add .
	git diff-index --quiet HEAD \|\| git commit -m "Automated Documentation Update\n\nWorkflow run ${GITHUB_RUN_ID} on ${GITHUB_SHA}."
	git push

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