actions test #350

	name: GitHub Actions Weekly Build (V2)

	on:
	push:
	pull_request:
	schedule:
	- cron: "0 0 /7 *"

	jobs:
	build-linux:
	runs-on: ubuntu-latest
	defaults:
	run:
	shell: bash -el {0}
	strategy:
	max-parallel: 5
	steps:
	- uses: actions/checkout@v4
	- name: Check out Repo
	uses: actions/setup-python@v5
	with:
	python-version: 3.9.19
	- name: Initiate conda channels
	uses: conda-incubator/setup-miniconda@v3
	with:
	channels: conda-forge,bioconda,default
	auto-activate-base: true
	- name: Initialize conda
	run: \|
	conda info
	- name: Set up QIIME Conda environment
	run: \|
	conda env create -n testenv --file=https://data.qiime2.org/distro/amplicon/qiime2-amplicon-2024.5-py39-linux-conda.yml
	- name: Install Dependencies
	run: \|
	conda activate testenv
	conda install biopython=1.84
	pip install pyzstd
	pip install pytest
	pip install .
	- name: Test with pytest
	run: \|
	# echo "begin: PATH=$PATH;"
	conda activate testenv
	# echo "after conda activate testenv: PATH=$PATH;"
	#conda info
	#ls $CONDA/bin
	pwd
	pytest
	- name: Test qiime install
	run: \|
	ls
	#conda activate testenv
	#conda info
	#$CONDA/bin/qiime dev refresch-cache
	#$CONDA/bin/qiime itsxpress --help

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