def test_config(self):
check_config_script = os.path.join(PROJECT_ROOT, "backend",
"czi_hosted", "eb",
"check_config.py")
with tempfile.TemporaryDirectory() as tempdir:
configfile = os.path.join(tempdir, "config.yaml")
app_config = AppConfig()
app_config.update_server_config(
multi_dataset__dataroot=f"{FIXTURES_ROOT}")
app_config.write_config(configfile)
command = ["python", check_config_script, configfile]
# test failure mode (flask_secret_key not set)
env = os.environ.copy()
env.pop("CXG_SECRET_KEY", None)
with self.assertRaises(
subprocess.CalledProcessError) as exception_context:
subprocess.check_output(command, env=env)
output = str(exception_context.exception.stdout, "utf-8")
self.assertTrue(
output.startswith(
"Error: Invalid type for attribute: app__flask_secret_key, expected type str, got NoneType"
))
self.assertEqual(exception_context.exception.returncode, 1)
# test passing case
env = os.environ.copy()
env["CXG_SECRET_KEY"] = "secret"
output = subprocess.check_output(command, env=env)
output = str(output, "utf-8")
self.assertTrue(output.startswith("PASS"))
def test_run(self):
tempdir = tempfile.TemporaryDirectory(
dir=f"{PROJECT_ROOT}/backend/czi_hosted")
tempdirname = tempdir.name
config = AppConfig()
# test that eb works
config.update_server_config(multi_dataset__dataroot=f"{FIXTURES_ROOT}",
app__flask_secret_key="open sesame")
config.complete_config()
config.write_config(f"{tempdirname}/config.yaml")
subprocess.check_call(f"git ls-files . | cpio -pdm {tempdirname}",
cwd=f"{PROJECT_ROOT}/backend/czi_hosted/eb",
shell=True)
subprocess.check_call(["make", "build"], cwd=tempdirname)
with run_eb_app(tempdirname) as server:
session = requests.Session()
r = session.get(f"{server}/d/pbmc3k.cxg/api/v0.2/config")
data_config = r.json()
assert data_config["config"]["displayNames"]["dataset"] == "pbmc3k"