| |
|
|
| import json |
|
|
| from pathway_analysis_env.server.case_loader import ( |
| CASE_SECRET_KEYS, |
| load_case_file, |
| strip_case_secrets, |
| ) |
| from pathway_analysis_env.server.pathway_environment import DATA_DIR, PathwayEnvironment |
| from pathway_analysis_env.models import PathwayAction |
|
|
|
|
| def test_strip_case_secrets(): |
| raw = { |
| "case_id": "x", |
| "true_pathway": "MAPK signaling", |
| "expected_keywords": ["mapk"], |
| "counts": {"G1": [1, 2]}, |
| } |
| pub = strip_case_secrets(raw) |
| for k in CASE_SECRET_KEYS: |
| assert k not in pub |
| assert "counts" in pub |
|
|
|
|
| def test_reset_agent_safe_case_has_no_secrets_in_memory(): |
| env = PathwayEnvironment(case_file="toy_case_001.json") |
| env.reset(eval_mode=True, orchestrator_mode=False) |
| dumped = json.dumps(env._case) |
| assert "true_pathway" not in dumped |
|
|
|
|
| def test_episode_observation_no_correct_without_orchestrator(): |
| env = PathwayEnvironment(case_file="toy_case_legacy.json") |
| env.reset() |
| env.step(PathwayAction(action_type="run_differential_expression")) |
| env.step(PathwayAction(action_type="run_pathway_enrichment")) |
| fin = env.step( |
| PathwayAction(action_type="submit_answer", hypothesis="MAPK signaling") |
| ) |
| assert fin.metadata.get("correct") is None |
| assert env.episode_outcome.get("correct") is True |
|
|
|
|
| def test_load_case_file_roundtrip(): |
| case, secrets = load_case_file(DATA_DIR, "toy_case_001.json", agent_safe=False) |
| assert secrets["true_pathway"] == "MAPK signaling" |
| assert case["case_id"] |
|
|
