update log and readme (#73) #73


	name: cicd_full

	on:
	# Run tests for pull-requests on master
	pull_request:
	branches:
	- master
	# Also run when the pull request merges (which generates a push)
	# So that we can tag the docker image appropriately.
	push:
	branches:
	- dev

	env:
	IMAGE_NAME: ${{ github.repository }}
	REGISTRY: ghcr.io
	TEST_TAG: ${{ github.repository }}:test

	jobs:
	deploy_docker:
	runs-on: ubuntu-latest

	permissions:
	packages: write

	steps:
	- name: Checkout branch
	uses: actions/checkout@v4

	- name: Build the Docker image
	id: build
	uses: docker/build-push-action@v5
	with:
	load: true
	tags: ${{ env.TEST_TAG }}

	# run the test on the docker image
	- name: Run tests in docker image
	run: >
	docker run
	--ipc=host
	${{ env.TEST_TAG }}
	python -m pytest ./test -s --log-cli-level DEBUG

	test_local:
	runs-on: ubuntu-latest
	permissions:
	contents: read
	packages: write

	steps:
	- name: Checkout branch
	uses: actions/checkout@v3

	# See https://github.com/marketplace/actions/setup-micromamba
	- name: setup-micromamba
	uses: mamba-org/[email protected]
	with:
	micromamba-version: '1.5.8-0' # temporary fix as setup-mircomamba hangs with later mamba version
	environment-file: environment.yml
	environment-name: pdaltools # activate the environment
	cache-environment: true
	cache-downloads: true
	generate-run-shell: true

	- name: Run tests with pytest
	shell: micromamba-shell {0}
	run: python -m pytest ./test -s --log-cli-level DEBUG

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