PD-5014 duplicate susceptible proteins are not reported #227

	name: MacOS C++ CI

	on:
	workflow_dispatch:
	push:
	pull_request:
	repository_dispatch:
	types: [mac-compile-test, install-test]
	jobs:
	build:

	runs-on: macos-latest

	steps:
	- uses: actions/checkout@v3
	- name: submodule checkout
	run: git submodule update --init --recursive
	- name: prerequisites
	run: \|
	/bin/bash -c "$(curl -fsSL https://raw.githubusercontent.com/Homebrew/install/master/install.sh)"
	brew install blast
	brew install hmmer
	- name: make
	run: make
	- name: download db
	run: ./amrfinder -u
	- name: Software and DB versions
	run: \|
	cat version.txt
	./amrfinder --database_version
	- name: make test
	run: make test
	- name: test for no-overwrite database update (PD-3469 / https://github.com/ncbi/amr/issues/16)
	run: ./amrfinder -u 2>&1 \| fgrep 'Skipping update'
	- name: make github_binaries
	run: \|
	make github_binaries
	version=`cat version.txt`
	mv amrfinder_binaries_v$version.tar.gz amrfinder_binaries_osx_v$version.txt
	- uses: actions/upload-artifact@v3
	with:
	name: release-binary
	path: amrfinder_binaries_osx_v*.tar.gz

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