tests

fixed move of associated files if no deidentification is performed du… #63

	name: tests

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

	defaults:
	run:
	shell: bash

	jobs:
	build:
	strategy:
	matrix:
	os: [ubuntu-latest]
	python-version: ["3.10", "3.11"]
	fail-fast: false
	runs-on: ${{ matrix.os }}
	defaults:
	run:
	shell: bash -l {0}
	steps:
	- uses: actions/checkout@v2
	- name: Disable etelemetry
	run: echo "NO_ET=TRUE" >> $GITHUB_ENV

	- name: Set up Python ${{ matrix.python-version }} on ${{ matrix.os }}
	uses: actions/setup-python@v2
	with:
	python-version: ${{ matrix.python-version }}

	- name: Install other dependencies
	run: \|
	sudo apt-get update
	sudo apt-get install -y libxml2-dev libxslt-dev git dcmtk

	- name: Update build tools
	run: python -m pip install --upgrade pip

	- name: Install Xnat-Ingest
	run: python -m pip install .[test]

	- name: Save XNAT username/password in ~/.netrc
	run: \|
	echo "machine localhost:8080" > $HOME/.netrc
	echo "user admin" >> $HOME/.netrc
	echo "password admin" >> $HOME/.netrc
	- name: Pytest
	run: pytest -vvs --cov xnat_ingest --cov-config .coveragerc --cov-report xml .
	- name: Upload coverage to Codecov
	uses: codecov/codecov-action@v2
	with:
	fail_ci_if_error: true
	token: ${{ secrets.CODECOV_TOKEN }}

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