activate the env before doing things in ci #19

	name: Test

	on:
	push:
	branches:
	- master
	pull_request:
	workflow_dispatch:

	jobs:
	miniconda:
	name: Miniconda ${{ matrix.os }}
	runs-on: ${{ matrix.os }}
	strategy:
	matrix:
	os: ["ubuntu-latest"]
	steps:
	- name: check out xpdtools
	uses: actions/checkout@v3
	with:
	repository: xpdacq/xpdtools
	# for bookkeeping have diffpy.snmf at the same level as everything else in the
	# directory tree
	path: .

	- name: initialize miniconda
	# this uses a marketplace action that sets up miniconda in a way that makes
	# it easier to use. I tried setting it up without this and it was a pain
	uses: conda-incubator/setup-miniconda@v2
	with:
	activate-environment: test
	# environment.yml file is needed by this action. Because I don't want
	# maintain this but rather maintain the requirements files it just has
	# basic things in it like conda and pip
	auto-update-conda: true
	environment-file: ./environment.yml
	auto-activate-base: false

	- name: install requirements
	run: \|
	conda config --set always_yes yes --set changeps1 no
	conda config --add channels conda-forge
	conda activate test
	conda install --file requirements.txt --file requirements-dev.txt
	python -m pip install . --no-deps


	- name: run the tests and check for test coverage
	run: \|
	conda activate test
	coverage run -m pytest
	coverage report -m
	codecov

	- name: check the code style
	run: \|
	conda activate test
	flake8

	- name: Upload coverage reports to Codecov
	uses: codecov/codecov-action@v3

Provide feedback