Genotype filtering training labels and cutoff optimization #174

	name: Test WDLs

	on:
	push:
	branches:
	- main
	paths:
	- 'wdl/**'
	pull_request:
	branches:
	- main
	paths:
	- 'wdl/**'

	jobs:
	syntax_test_job:
	runs-on: ubuntu-22.04
	name: Check WDL Syntax
	strategy:
	matrix:
	python-version: ['3.8']
	steps:
	- name: Checkout code
	uses: actions/checkout@v3

	- name: Setup Python
	uses: actions/setup-python@v3
	with:
	python-version: ${{ matrix.python-version }}

	- name: Setup Java
	uses: actions/setup-java@v3
	with:
	# See https://github.com/actions/setup-java for the available options.
	distribution: 'temurin'
	java-version: '17'

	- name: Setup
	run: \|
	python -m pip install --upgrade pip
	# Setup for running miniwdl
	pip install miniwdl

	# Setup for running womtool
	pip install jinja2==3.1.2
	wget -O womtool.jar https://github.com/broadinstitute/cromwell/releases/download/84/womtool-84.jar
	echo \
	'{ "google_project_id": "my-google-project-id", "terra_billing_project_id": "my-terra-billing-project" }' \
	> inputs/values/google_cloud.my_project.json
	scripts/inputs/build_default_inputs.sh -d . -c google_cloud.my_project

	- name: Test with Miniwdl
	run: \|
	python scripts/test/miniwdl_validation.py \
	--imports-dir wdl \
	wdl/*.wdl

	- name: Test with WOMtool
	run: \|
	scripts/test/validate.sh -t -d . -j womtool.jar

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