Adaptive Prodigal call for short assemblies #357

	name: build
	on: [push, pull_request]
	jobs:
	test:
	strategy:
	fail-fast: false
	matrix:
	os: [ubuntu, macos]
	ruby: ['2.7', '3.0', '3.3']
	runs-on: ${{ matrix.os }}-latest
	name: Ruby ${{ matrix.ruby }} on ${{ matrix.os }}
	steps:
	- uses: actions/checkout@v4
	- uses: ruby/setup-ruby@v1
	with:
	ruby-version: ${{ matrix.ruby }}
	- run: bundle install
	- run: bundle exec rake test
	remote-test:
	runs-on: ubuntu-latest
	name: Remote tests
	steps:
	- uses: actions/checkout@v4
	- uses: ruby/setup-ruby@v1
	with:
	ruby-version: 2.7
	- run: bundle install
	- run: bundle exec rake test
	env:
	REMOTE_TESTS: true
	- uses: paambaati/codeclimate-action@v3.2.0
	env:
	CC_TEST_REPORTER_ID: "${{ secrets.CC_MIGA_REPORTER_ID }}"
	with:
	coverageCommand: bundle exec codeclimate-test-reporter
	publish:
	if: github.event_name == 'push' && github.ref == 'refs/heads/main'
	needs: [test, remote-test]
	runs-on: ubuntu-latest
	name: Release new version
	steps:
	- uses: actions/checkout@v4
	with:
	submodules: 'recursive'
	- name: Check release candidates
	id: release
	run: \|
	gem_version="$(ruby -r rubygems -e "puts Gem::Specification::load('$(ls *.gemspec)').version")"
	unset STABLE
	[[ "$gem_version" == .rc ]] \|\| STABLE='true'
	echo "STABLE=${STABLE}" >> $GITHUB_OUTPUT
	- name: Tag and deploy
	id: publish
	uses: discourse/publish-rubygems-action@v2
	if: steps.release.outputs.STABLE
	env:
	RUBYGEMS_API_KEY: ${{ secrets.RUBYGEMS_API_KEY }}
	GIT_EMAIL: bot@microbial-genomes.org
	GIT_NAME: Automated Release

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