tests: alias DLBCL + garde-fou Trackare + e2e PDFs réels + gold CRH + benchmark enrichi
- 11 tests unitaires : TestAliasAndConclusionBonus (7) + TestTrackareSymptomGuard (4) - Tests e2e sur PDFs réels (skip si absent) : méningite A87.0 + DLBCL C83.3 top1 - Gold CRH enrichi : 5 cas (2 réels ajoutés : 115_23066188, 132_23080179) - Benchmark synthese : récupération conclusion depuis source_excerpt des DAS/traitements - .gitignore : protection anti-PHI (real_crh_pdfs/, data/crh_samples/*.pdf) - docs/PHI_POLICY.md : 7 règles de sécurité PHI - Rapports debug : case 132 REVIEW (garde-fou actif), top errors, DIM pack 1043 tests passent, 0 régression. Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
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tests/test_e2e_real_crh_pdf.py
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tests/test_e2e_real_crh_pdf.py
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"""Smoke tests end-to-end sur PDFs CRH réels.
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Chaîne testée : PDF → texte → crh_parser → extraction → dp_selector → dp_selection.
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Les tests skip proprement si les PDFs ne sont pas présents localement.
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SÉCURITÉ : aucun texte brut complet n'est logué — excerpts <= 240 chars uniquement.
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"""
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from __future__ import annotations
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from pathlib import Path
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import pytest
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# ---------------------------------------------------------------------------
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# Chemins PDF réels (non versionnés, gitignored)
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# ---------------------------------------------------------------------------
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REAL_CRH_DIR = Path(__file__).resolve().parent.parent / "real_crh_pdfs"
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PDF_23066188 = REAL_CRH_DIR / "23066188.pdf"
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PDF_23080179 = REAL_CRH_DIR / "23080179.pdf"
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needs_pdf_23066188 = pytest.mark.skipif(
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not PDF_23066188.exists(),
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reason=f"PDF réel absent : {PDF_23066188}",
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)
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needs_pdf_23080179 = pytest.mark.skipif(
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not PDF_23080179.exists(),
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reason=f"PDF réel absent : {PDF_23080179}",
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)
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# ---------------------------------------------------------------------------
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# Helper : pipeline minimale offline (pas de LLM)
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# ---------------------------------------------------------------------------
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def _run_offline_pipeline(pdf_path: Path) -> tuple:
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"""Exécute la chaîne CRH complète sans Ollama.
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Returns (raw_text, parsed, dossier) — excerpts seulement pour asserts.
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"""
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from src.extraction.pdf_extractor import extract_text
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from src.extraction.document_classifier import classify
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from src.extraction.crh_parser import parse_crh
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from src.anonymization.anonymizer import Anonymizer
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from src.medical.cim10_extractor import extract_medical_info
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raw_text = extract_text(pdf_path)
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assert len(raw_text) > 200, "PDF trop court ou vide"
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doc_type = classify(raw_text)
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assert doc_type == "crh", f"Attendu crh, obtenu {doc_type}"
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parsed = parse_crh(raw_text)
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anonymizer = Anonymizer(parsed_data=parsed)
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anon_text = anonymizer.anonymize(raw_text)
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# edsnlp optionnel
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edsnlp_result = None
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try:
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from src.medical.edsnlp_pipeline import analyze, is_available
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if is_available():
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edsnlp_result = analyze(anon_text)
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except Exception:
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pass
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dossier = extract_medical_info(
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parsed_data=parsed,
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anonymized_text=anon_text,
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edsnlp_result=edsnlp_result,
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use_rag=False,
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raw_text=raw_text,
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)
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return raw_text, parsed, dossier
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# ===================================================================
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# Test 1 : Case 23066188 — Méningite à entérovirus (DP clair)
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# ===================================================================
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@needs_pdf_23066188
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class TestCase23066188:
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"""CRH pédiatrie — méningite à entérovirus, DP sans ambiguïté."""
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@pytest.fixture(autouse=True)
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def setup(self):
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self.raw_text, self.parsed, self.dossier = _run_offline_pipeline(PDF_23066188)
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def test_document_classified_crh(self):
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assert self.dossier.document_type == "crh"
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def test_sections_contain_meningite(self):
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"""Le parser CRH doit trouver au moins une section mentionnant méningite."""
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sections = self.parsed.get("sections", {})
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contenu = self.parsed.get("contenu_medical", "")
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all_text = " ".join(sections.values()) + " " + contenu
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low = all_text.lower()
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assert "méningite" in low or "meningite" in low, (
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f"'méningite' introuvable dans sections/contenu (excerpt: {all_text[:240]})"
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)
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def test_sections_contain_enterovirus(self):
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"""Entérovirus doit apparaître dans le contenu médical."""
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sections = self.parsed.get("sections", {})
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contenu = self.parsed.get("contenu_medical", "")
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all_text = " ".join(sections.values()) + " " + contenu
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low = all_text.lower()
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assert "entérovirus" in low or "enterovirus" in low, (
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f"'entérovirus' introuvable (excerpt: {all_text[:240]})"
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)
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def test_pool_contains_a87(self):
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"""Le pool de candidats doit contenir un code famille A87."""
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sel = self.dossier.dp_selection
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assert sel is not None, "dp_selection est None"
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codes = [c.code or "" for c in sel.candidates]
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has_a87 = any(c.startswith("A87") for c in codes)
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# Fallback tolérant : vérifier aussi le DP extrait
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dp = self.dossier.diagnostic_principal
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dp_code = dp.cim10_suggestion if dp else ""
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assert has_a87 or (dp_code or "").startswith("A87"), (
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f"Aucun candidat A87.* — codes trouvés: {codes}, DP: {dp_code}"
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)
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def test_dp_code_family_a87(self):
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"""Le DP choisi doit être dans la famille A87."""
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sel = self.dossier.dp_selection
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assert sel is not None
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chosen = sel.chosen_code or ""
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# Tolérant : accepter family3 match
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assert chosen.startswith("A87") or chosen.startswith("A87"), (
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f"DP choisi = {chosen}, attendu A87.*"
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)
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def test_evidence_if_confirmed(self):
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"""Si verdict CONFIRMED, evidence ne doit pas être vide (règle A1)."""
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sel = self.dossier.dp_selection
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if sel and sel.verdict == "CONFIRMED":
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assert len(sel.evidence) > 0, "CONFIRMED sans evidence — violation règle A1"
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# ===================================================================
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# Test 2 : Case 23080179 — DLBCL masqué par adénopathie (piège)
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# ===================================================================
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@needs_pdf_23080179
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class TestCase23080179:
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"""CRH onco — lymphome DLBCL masqué par adénopathie R59.0."""
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@pytest.fixture(autouse=True)
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def setup(self):
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self.raw_text, self.parsed, self.dossier = _run_offline_pipeline(PDF_23080179)
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def test_document_classified_crh(self):
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assert self.dossier.document_type == "crh"
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def test_text_contains_dlbcl(self):
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"""Le texte brut doit contenir DLBCL ou lymphome."""
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low = self.raw_text[:5000].lower()
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assert "dlbcl" in low or "lymphome" in low, (
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f"'DLBCL'/'lymphome' introuvable dans les 5000 premiers chars"
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)
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def test_conclusion_contains_valym(self):
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"""La conclusion doit mentionner le protocole VALYM."""
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conclusion = self.parsed.get("sections", {}).get("conclusion", "")
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assert "VALYM" in conclusion or "valym" in conclusion.lower(), (
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f"'VALYM' introuvable dans conclusion (excerpt: {conclusion[:240]})"
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)
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def test_pool_contains_c83(self):
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"""Le pool doit contenir un candidat famille C83 (lymphome)."""
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sel = self.dossier.dp_selection
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assert sel is not None, "dp_selection est None"
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codes = [c.code or "" for c in sel.candidates]
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dp = self.dossier.diagnostic_principal
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dp_code = dp.cim10_suggestion if dp else ""
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all_codes = codes + [dp_code]
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has_c83 = any(c.startswith("C83") for c in all_codes)
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# Tolérant : accepter aussi C85 (lymphome non hodgkinien) ou C84
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has_lymphoma = any(
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c.startswith(("C83", "C84", "C85")) for c in all_codes
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)
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assert has_c83 or has_lymphoma, (
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f"Aucun candidat C83/C84/C85 — codes: {all_codes}"
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)
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def test_dp_not_symptom_r59(self):
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"""Le DP ne doit PAS être R59.0 (symptôme adénopathie).
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Avec le patch alias DLBCL→C83.3, le scoring doit placer C83.3
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devant R59.0 grâce au bonus conclusion/alias.
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"""
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sel = self.dossier.dp_selection
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dp = self.dossier.diagnostic_principal
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chosen = (sel.chosen_code if sel else None) or (dp.cim10_suggestion if dp else "")
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assert not chosen.startswith("R59"), (
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f"Pipeline code encore R59.0 (symptôme) au lieu de C83.* — "
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f"le patch alias aurait dû corriger ça"
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)
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def test_c83_is_top1(self):
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"""C83.* (DLBCL) doit être le candidat #1 grâce au bonus alias."""
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sel = self.dossier.dp_selection
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assert sel is not None, "dp_selection est None"
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assert len(sel.candidates) > 0, "Aucun candidat"
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top1 = sel.candidates[0]
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assert (top1.code or "").startswith("C83"), (
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f"Top1 = {top1.code} ({top1.label}), attendu C83.* — "
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f"tous: {[(c.code, c.score) for c in sel.candidates[:3]]}"
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)
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def test_evidence_if_confirmed(self):
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"""Si verdict CONFIRMED, evidence ne doit pas être vide."""
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sel = self.dossier.dp_selection
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if sel and sel.verdict == "CONFIRMED":
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assert len(sel.evidence) > 0, "CONFIRMED sans evidence — violation règle A1"
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