Update #20

	name: Update
	on:
	schedule:
	- cron: "0 5 * * 1"
	push:
	branches: [main]
	jobs:
	run_script_and_update:
	runs-on: ubuntu-latest
	defaults:
	run:
	shell: bash -el {0}
	permissions:
	contents: write

	steps:
	- name: Checkout Repository
	uses: actions/checkout@v4
	with:
	persist-credentials: true
	fetch-depth: 0
	clean: true

	- name: setup miniconda
	uses: conda-incubator/setup-miniconda@v3
	with:
	miniforge-variant: Mambaforge
	miniforge-version: latest
	use-mamba: true
	auto-activate-base: false
	activate-environment: test
	auto-update-conda: true
	python-version: "3.11"
	environment-file: etc/example-environment.yml

	- name: Setup R
	uses: r-lib/actions/setup-r@v2
	with:
	r-version: "4.2.3"
	use-public-rspm: true
	- run: Rscript -e 'install.packages(c("stringr", "tibble","data.table","stringr", "purrr", "usethis"))'

	- name: Run bash scripts1
	run: \|
	git submodule update --init --recursive
	ls -al ./metadata/journals

	- name: Run bash scripts2
	run: \|
	ls -al
	bash ./main.sh

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