Nightly benchmarks #1200


	name: Nightly benchmarks

	on:
	schedule:
	- cron: "0 4 1/1 * *" # every night at 4

	# big behchmark on manual run
	workflow_dispatch:


	jobs:
	build:
	runs-on: ubuntu-latest
	steps:
	- uses: actions/checkout@v1
	with:
	ref: dev # run on dev branch
	- name: Set up Python
	uses: actions/setup-python@v3
	with:
	python-version: "3.10"

	- name: install dependencies
	run: \|
	python -m pip install --upgrade pip

	- name: Run benchmarks
	uses: snakemake/snakemake-github-action@v1
	with:
	directory: '.'
	snakefile: 'Snakefile'
	args: '--cores 1 --use-conda --conda-cleanup-pkgs cache report_big.md validation_report_big.md'
	stagein: \| # 'cd benchmarks' # additional preliminary commands to run (can be multiline)
	python -m pip install --upgrade pip setuptools wheel
	pip install git+https://github.com/bionumpy/npstructures.git/@dev
	pip install -r requirements_dev.txt
	pip install plotly
	pip install .
	cd benchmarks

	- name: Save benchmarks results
	run: \|

	git config --global user.email "[email protected]"
	git config --global user.name "github action"

	git checkout --orphan benchmarks-big
	# we only want the files we created
	git rm -r --cached .

	git add -f benchmarks/report.md
	git add -f benchmarks/results/reports//.png
	git add -f benchmarks/results/reports//.data
	git commit -am 'Benchmark results'

	- name: Push results to benchmark branch
	uses: ad-m/github-push-action@master
	with:
	github_token: ${{ secrets.GITHUB_TOKEN }}
	tags: true
	force: true
	branch: benchmarks-big

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