Add validator test

.gitignore

@@ -615,3 +615,4 @@ healthchecksdb
 MigrationBackup/
 
 # End of https://www.gitignore.io/api/osx,python,pycharm,windows,visualstudio,visualstudiocode
+vcf_validator/vcf_validator

tests/test_example/test_vcf_validator.py

@@ -0,0 +1,68 @@
+import platform
+import stat
+import subprocess
+from pathlib import Path
+from urllib.request import urlretrieve
+
+import pytest
+from typer.testing import CliRunner
+
+from fake_vcf.__main__ import app
+
+runner = CliRunner()
+
+test_file_parent = Path(__file__).resolve().parent
+
+
+def vcf_validator():
+    vcf_validator_path = test_file_parent / "../../vcf_validator/vcf_validator"
+    base_url = "https://github.com/EBIvariation/vcf-validator/releases/download/v0.9.4"
+    dl_urls = {
+        "Linux": f"{base_url}/vcf_validator_linux",
+        "Darwin": f"{base_url}/vcf_validator_macos",
+        "Windows": f"{base_url}/vcf_validator.exe",
+    }
+    system_platform = platform.system()
+    if not vcf_validator_path.exists():
+        urlretrieve(dl_urls[system_platform], vcf_validator_path)
+        vcf_validator_path.chmod(vcf_validator_path.stat().st_mode | stat.S_IEXEC)
+
+    return vcf_validator_path
+
+
+def run_vcf_validator(vcf_file_path, result_path):
+    args = ["-r", "text", "-i", f"{vcf_file_path}", f"-o", f"{result_path}"]
+    vcf_validator_path = vcf_validator()
+    cmd = [vcf_validator_path] + args
+
+    result = subprocess.run(cmd, capture_output=True, text=True)
+    all_error_data = []
+    for f in result_path.glob("*error*.txt"):
+        with open(f) as vcf_error_file:
+            error_data = vcf_error_file.read()
+            all_error_data.append(error_data)
+    return result, "\n".join(all_error_data)
+
+
+@pytest.mark.parametrize(
+    ("cli_args",),
+    [
+        (["-r", "10", "--no-large-format"],),
+        (["-r", "50", "--no-large-format"],),
+        (["-r", "100", "--no-large-format"],),
+    ],
+)
+def test_vcf_file_validation(cli_args: list, tmp_path):
+    vcf_file_path = tmp_path / "example.vcf"
+    args = cli_args + ["-o", vcf_file_path]
+    runner.invoke(app, args=args)
+
+    validator_status, validation_result = run_vcf_validator(
+        vcf_file_path=vcf_file_path, result_path=tmp_path
+    )
+
+    assert (
+        "According to the VCF specification, the input file is valid"
+        in validation_result
+    )
+    assert validator_status.returncode == 0