# Copyright (c) Meta Platforms, Inc. and affiliates. # All rights reserved. from pathway_analysis_env.server.scoring import ( is_unknown_ground_truth, KEYWORD_BASE_SCORE, labels_match, score_submission, ) def test_labels_match_fuzzy(): assert labels_match("MAPK signaling", "mapk signaling") assert labels_match( "Estrogen Response Early", "MSigDB_Hallmark_2020: Estrogen Response Early", ) def test_score_exact_pathway(): out = score_submission( "MAPK signaling", true_pathway="MAPK signaling", pathway_gene_set_names=["MAPK signaling", "PI3K-Akt signaling"], top_ora_pathways=["ERK cascade"], ) assert out["correct"] is True assert out["match_mode"] == "pathway_label" def test_score_keywords_geo(): out = score_submission( "Strong estrogen response hallmark", true_pathway="Unknown (GEO benchmark)", expected_keywords=["estrogen", "ESR1"], top_ora_pathways=[], ) assert out["correct"] is True assert out["match_mode"] == "expected_keywords" def test_unknown_ground_truth(): assert is_unknown_ground_truth("Unknown (GEO benchmark)") def test_distractor_pathway_label_not_credited(): """Naming a distractor pathway defined in the case must not score 1.0. Regression guard for a reward-hacking surface: previously any pathway gene-set name present in the case (or any top ORA hit) matched as a ``pathway_label`` and earned full credit. """ out = score_submission( "PI3K-Akt signaling", true_pathway="MAPK signaling", pathway_gene_set_names=["MAPK signaling", "ERK cascade", "PI3K-Akt signaling"], top_ora_pathways=["MAPK signaling", "ERK cascade", "PI3K-Akt signaling"], ) assert out["correct"] is False assert out["score"] == 0.0 assert out["match_mode"] == "no_match" def test_top_ora_hit_not_credited_when_truth_known(): """A top ORA hit that is not the true pathway must not earn credit.""" out = score_submission( "ERK cascade", true_pathway="MAPK signaling", top_ora_pathways=["ERK cascade", "MAPK signaling"], ) assert out["correct"] is False assert out["score"] == 0.0 def test_true_pathway_alias_credited(): """Explicit aliases of the true pathway earn full credit.""" out = score_submission( "MAPK/ERK pathway", true_pathway="MAPK signaling", true_pathway_aliases=["MAPK/ERK pathway", "RAS-MAPK"], ) assert out["correct"] is True assert out["score"] == 1.0 assert out["match_mode"] == "pathway_label" def test_keyword_score_normalized_above_base(): """A correct GEO answer scores on a scale comparable to exact matches. A single keyword hit out of several should land at or above the base score, not collapse to a small fraction like 1/5 = 0.2. """ out = score_submission( "estrogen response", true_pathway="Unknown (GEO benchmark)", expected_keywords=["estrogen", "ESR1", "fulvestrant", "ER", "hormone"], ) assert out["correct"] is True assert out["score"] >= KEYWORD_BASE_SCORE assert out["match_mode"] == "expected_keywords"