Fix environment not set correctly in Apptainer #13

	name: Run tests

	on:
	push:
	branches:
	- main
	pull_request:
	branches:
	- main

	jobs:
	test:
	runs-on: ${{ matrix.os }}
	strategy:
	matrix:
	python-version: ['3.10', '3.11', '3.12']
	os: [ubuntu-latest]
	fail-fast: false # Continue running jobs even if one fails

	steps:
	- name: Checkout repository
	uses: actions/checkout@692973e3d937129bcbf40652eb9f2f61becf3332 #v4.1.17

	- name: Set up PDM
	uses: pdm-project/setup-pdm@568ddd69406b30de1774ec0044b73ae06e716aa4 # v4.1
	with:
	python-version: ${{ matrix.python-version }}

	- name: Install dependencies
	run: \|
	pdm sync --dev

	- name: Run pytest
	run: \|
	pdm run --verbose pytest tests

	- name: Set up apptainer
	uses: eWaterCycle/setup-apptainer@49d1318e968f6198413f051f13af8b8bb9153368 # v2
	with:
	apptainer-version: 1.3.0

	- name: Run integration tests
	run: \|
	for test in tests/integration/*/test.sh; do
	echo "Running $test"
	pushd $(dirname $test)
	bash $(basename $test)
	popd
	done

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