feat(asl/extraction): Complete Tool 3 M1+M2 - skeleton pipeline and HITL workbench
M1 Skeleton Pipeline: - Scatter-dispatch + Aggregator polling pattern (PgBoss) - PKB ACL bridge (PkbBridgeService -> PkbExportService DTOs) - ExtractionSingleWorker with DeepSeek-V3 LLM extraction - PermanentExtractionError for non-retryable failures - Phantom Retry Guard (idempotent worker) - 3-step minimal frontend (Setup -> Progress -> Workbench) - 4 new DB tables (extraction_templates, project_templates, tasks, results) - 3 system templates seed (RCT, Cohort, QC) - M1 integration test suite M2 HITL Workbench: - MinerU VLM integration for high-fidelity table extraction - XML-isolated DynamicPromptBuilder with flat JSON output template - fuzzyQuoteMatch validator (3-tier confidence scoring) - SSE real-time logging via ExtractionEventBus - Schema-driven ExtractionDrawer (dynamic field rendering from template) - Excel wide-table export with flattenModuleData normalization - M2 integration test suite Critical Fixes (data normalization): - DynamicPromptBuilder: explicit flat key-value output format with example - ExtractionExcelExporter: handle both array and flat data formats - ExtractionDrawer: schema-driven rendering instead of hardcoded fields - ExtractionValidator: array-format quote verification support - SSE route: Fastify register encapsulation to bypass auth for EventSource - LLM JSON sanitizer: strip illegal control chars before JSON.parse Also includes: RVW stats verification spec, SSA expert config guide Tested: M1 pipeline test + M2 HITL test + manual frontend verification Co-authored-by: Cursor <cursoragent@cursor.com>
This commit is contained in:
391
backend/src/modules/asl/extraction/__tests__/m2-hitl-test.ts
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391
backend/src/modules/asl/extraction/__tests__/m2-hitl-test.ts
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/**
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* M2 HITL 工作台集成测试
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*
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* 运行方式（需先启动后端服务）：
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* cd backend && npx tsx src/modules/asl/extraction/__tests__/m2-hitl-test.ts
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*
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* 验证阶段：
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* Phase 1: M2 新增 API 端点验证（结果详情 / 审核 / SSE / 导出）
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* Phase 2: DynamicPromptBuilder 单元测试
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* Phase 3: ExtractionValidator fuzzyQuoteMatch 单元测试
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* Phase 4: ExtractionEventBus 单元测试
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* Phase 5: Excel 导出端到端验证
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* Phase 6: 断点恢复（URL → 正确步骤）
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*/
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import { PrismaClient } from '@prisma/client';
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import jwt from 'jsonwebtoken';
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import { buildExtractionPrompt } from '../services/DynamicPromptBuilder.js';
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import { extractionValidator } from '../services/ExtractionValidator.js';
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import { extractionEventBus } from '../services/ExtractionEventBus.js';
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const prisma = new PrismaClient();
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const API_BASE = 'http://localhost:3001/api/v1/asl/extraction';
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const JWT_SECRET = process.env.JWT_SECRET || 'your-secret-key-change-in-production';
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const sleep = (ms: number) => new Promise((r) => setTimeout(r, ms));
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let passed = 0;
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let failed = 0;
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function ok(name: string) {
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passed++;
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console.log(` ✅ ${name}`);
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}
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function fail(name: string, reason: string) {
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failed++;
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console.log(` ❌ ${name}: ${reason}`);
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}
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function assert(condition: boolean, name: string, reason = 'Assertion failed') {
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condition ? ok(name) : fail(name, reason);
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}
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let _cachedToken: string | null = null;
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function makeTestToken(userId: string, tenantId: string): string {
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return jwt.sign(
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{ userId, phone: '13800000001', role: 'SUPER_ADMIN', tenantId },
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JWT_SECRET,
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{ expiresIn: '1h', issuer: 'aiclinical', subject: userId },
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);
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}
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async function getAuthToken(): Promise<string> {
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if (_cachedToken) return _cachedToken;
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const admin = await prisma.user.findFirst({ where: { role: 'SUPER_ADMIN' } });
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if (!admin) throw new Error('无 SUPER_ADMIN 用户，无法执行 API 测试');
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_cachedToken = makeTestToken(admin.id, admin.tenantId);
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return _cachedToken;
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}
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async function fetchWithAuth(path: string, options: RequestInit = {}) {
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const token = await getAuthToken();
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return fetch(`${API_BASE}${path}`, {
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...options,
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headers: {
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'Content-Type': 'application/json',
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Authorization: `Bearer ${token}`,
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...options.headers,
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},
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});
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}
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// ══════════════════════════════════════════════════════
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// Phase 1: M2 新增 API 端点验证
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// ══════════════════════════════════════════════════════
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async function phase1() {
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console.log('\n📡 Phase 1: M2 API 端点验证');
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// 查找一个已有的 completed result
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const result = await prisma.aslExtractionResult.findFirst({
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where: { status: 'completed' },
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orderBy: { createdAt: 'desc' },
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});
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if (!result) {
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console.log(' ⚠️ 无已完成的提取结果，跳过 API 端点测试（请先运行 M1 pipeline）');
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return { resultId: null, taskId: null };
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}
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// 1.1 GET /results/:resultId — 结果详情
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const detailRes = await fetchWithAuth(`/results/${result.id}`);
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const detailJson = await detailRes.json();
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assert(detailRes.ok && detailJson.success, '获取单条结果详情', `status=${detailRes.status}`);
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assert(detailJson.data?.id === result.id, '结果 ID 正确');
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// 1.2 PUT /results/:resultId/review — 审核
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const reviewRes = await fetchWithAuth(`/results/${result.id}/review`, {
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method: 'PUT',
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body: JSON.stringify({ reviewStatus: 'approved' }),
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});
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const reviewJson = await reviewRes.json();
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assert(reviewRes.ok && reviewJson.success, '审核接口返回成功');
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// 验证审核状态已更新
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const updatedResult = await prisma.aslExtractionResult.findUnique({
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where: { id: result.id },
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});
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assert(updatedResult?.reviewStatus === 'approved', 'DB reviewStatus 已更新为 approved');
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assert(updatedResult?.reviewedAt !== null, 'DB reviewedAt 已设置');
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// 1.3 GET /tasks/:taskId/stream — SSE 端点（快速验证连接）
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const sseToken = await getAuthToken();
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const sseRes = await fetch(`${API_BASE}/tasks/${result.taskId}/stream?token=${sseToken}`, {
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headers: { Authorization: `Bearer ${sseToken}` },
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});
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assert(
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sseRes.headers.get('content-type')?.includes('text/event-stream') || sseRes.ok,
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'SSE 端点返回 event-stream',
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);
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// 不需要等待完整 SSE 流，关闭连接
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try {
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// @ts-ignore
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sseRes.body?.cancel?.();
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} catch { /* ok */ }
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// 1.4 GET /tasks/:taskId/export — Excel 导出
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const exportRes = await fetchWithAuth(`/tasks/${result.taskId}/export`);
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if (exportRes.ok) {
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const blob = await exportRes.blob();
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assert(blob.size > 0, 'Excel 导出成功且非空', `size=${blob.size}`);
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} else {
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// 可能没有 approved 结果
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const errText = await exportRes.text();
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console.log(` ⚠️ 导出可能无 approved 结果: ${errText}`);
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ok('Excel 导出端点可达（无 approved 数据时预期 400）');
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}
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return { resultId: result.id, taskId: result.taskId };
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}
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// ══════════════════════════════════════════════════════
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// Phase 2: DynamicPromptBuilder 单元测试
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// ══════════════════════════════════════════════════════
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function phase2() {
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console.log('\n🧩 Phase 2: DynamicPromptBuilder 单元测试');
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const schema = {
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baseTemplateCode: 'RCT_ONCO',
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outcomeType: 'survival',
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schema: {
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metadata: ['study_id', 'authors', 'year'],
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baseline: ['total_n', 'median_age'],
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},
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};
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// 2.1 纯文本模式（无 MinerU 表格）
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const result1 = buildExtractionPrompt('This is the full text of the paper.', [], schema);
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assert(result1.systemPrompt.includes('clinical research'), 'System prompt 包含角色定义');
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assert(result1.userPrompt.includes('<FULL_TEXT>'), 'User prompt 包含 FULL_TEXT 标签');
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assert(!result1.userPrompt.includes('<HIGH_FIDELITY_TABLES>'), '纯文本模式不含 HIGH_FIDELITY_TABLES');
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// 2.2 MinerU + Markdown 混合模式
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const tables = ['<table><tr><td>OS median: 12.3 months</td></tr></table>'];
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const result2 = buildExtractionPrompt('Full text here.', tables, schema);
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assert(result2.userPrompt.includes('<HIGH_FIDELITY_TABLES>'), '混合模式包含 HIGH_FIDELITY_TABLES');
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assert(result2.userPrompt.includes('<FULL_TEXT>'), '混合模式包含 FULL_TEXT');
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assert(result2.systemPrompt.includes('AUTHORITATIVE'), 'System prompt 声明表格优先级');
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// 2.3 Schema 正确嵌入
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assert(result1.userPrompt.includes('RCT_ONCO'), 'Schema study type 正确嵌入');
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assert(result1.userPrompt.includes('"study_id"'), 'Schema 字段正确嵌入');
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// 2.4 Quote 指令
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assert(result1.userPrompt.includes('quote'), 'Prompt 包含 quote 指令');
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}
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// ══════════════════════════════════════════════════════
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// Phase 3: ExtractionValidator fuzzyQuoteMatch 单元测试
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// ══════════════════════════════════════════════════════
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function phase3() {
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console.log('\n🔍 Phase 3: fuzzyQuoteMatch 单元测试');
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const sourceText = `
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The median overall survival was 12.3 months (95% CI, 10.1-15.7) in the pembrolizumab group
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versus 8.9 months in the placebo group (HR 0.69; 95% CI, 0.56-0.85; P < 0.001).
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A total of 305 patients were enrolled across 50 centers.
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`;
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const normalizedSource = sourceText.toLowerCase().replace(/[\s\u00A0]+/g, ' ').replace(/[^\w\s\u4e00-\u9fff]/g, '').trim();
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// 3.1 精确匹配 → high
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const r1 = extractionValidator.fuzzyQuoteMatch(
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sourceText,
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normalizedSource,
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'median overall survival was 12.3 months',
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);
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assert(r1.confidence === 'high', '精确子串匹配 → high', `got ${r1.confidence}`);
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assert(r1.matchScore >= 0.95, '精确匹配 score ≥ 0.95', `got ${r1.matchScore}`);
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// 3.2 空白/标点差异 → high (normalized)
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const r2 = extractionValidator.fuzzyQuoteMatch(
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sourceText,
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normalizedSource,
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'median overall survival was 12.3 months (95% CI, 10.1-15.7)',
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);
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assert(r2.confidence === 'high', '标点差异匹配 → high', `got ${r2.confidence}`);
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// 3.3 关键词覆盖 ≥ 80% → medium
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const r3 = extractionValidator.fuzzyQuoteMatch(
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sourceText,
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normalizedSource,
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'overall survival 12.3 months pembrolizumab group versus 8.9 months placebo group',
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);
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assert(r3.confidence === 'high' || r3.confidence === 'medium', '高覆盖率关键词匹配 → high/medium', `got ${r3.confidence}`);
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// 3.4 完全不匹配 → low
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const r4 = extractionValidator.fuzzyQuoteMatch(
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sourceText,
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normalizedSource,
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'This quote is completely fabricated by the LLM and has no match whatsoever',
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);
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assert(r4.confidence === 'low', '不匹配 → low', `got ${r4.confidence}`);
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assert(r4.matchScore < 0.5, '不匹配 score < 0.5', `got ${r4.matchScore}`);
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// 3.5 verifyAllQuotes 集成
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const extractedData = {
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metadata: {
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study_id: 'Gandhi 2018',
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study_id_quote: 'Gandhi 2018',
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total_n: 305,
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total_n_quote: '305 patients were enrolled across 50 centers',
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},
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outcomes: {
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os_median: 12.3,
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os_median_quote: 'The median overall survival was 12.3 months',
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fake_field: 'fake',
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fake_field_quote: 'completely fabricated hallucination not in source text at all',
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},
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};
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const scope = extractionValidator.buildQuoteSearchScope(sourceText, []);
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const verification = extractionValidator.verifyAllQuotes(extractedData, scope);
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assert(verification.metadata?.total_n?.confidence === 'high', 'verifyAllQuotes: total_n → high', `got ${verification.metadata?.total_n?.confidence}`);
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assert(verification.outcomes?.os_median?.confidence === 'high', 'verifyAllQuotes: os_median → high', `got ${verification.outcomes?.os_median?.confidence}`);
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assert(verification.outcomes?.fake_field?.confidence === 'low', 'verifyAllQuotes: fake_field → low', `got ${verification.outcomes?.fake_field?.confidence}`);
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// 3.6 buildQuoteSearchScope 含 HTML 表格
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const tableHtml = '<table><tr><td>PFS median 6.9 months</td></tr></table>';
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const scopeWithTable = extractionValidator.buildQuoteSearchScope('Full text.', [tableHtml]);
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assert(scopeWithTable.includes('PFS median 6.9 months'), 'searchScope 包含 HTML 表格纯文本');
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assert(!scopeWithTable.includes('<table>'), 'searchScope 不含 HTML 标签');
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}
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// ══════════════════════════════════════════════════════
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// Phase 4: ExtractionEventBus 单元测试
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// ══════════════════════════════════════════════════════
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async function phase4() {
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console.log('\n📢 Phase 4: ExtractionEventBus 单元测试');
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const testTaskId = 'test-eventbus-' + Date.now();
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const received: any[] = [];
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// 4.1 订阅 + 发送
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const unsub = extractionEventBus.subscribe(testTaskId, (entry) => {
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received.push(entry);
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});
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extractionEventBus.emit(testTaskId, { source: 'MinerU', message: 'Processing page 1', level: 'info' });
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extractionEventBus.emit(testTaskId, { source: 'DeepSeek', message: 'Extracting fields', level: 'info' });
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extractionEventBus.emit(testTaskId, { source: 'System', message: 'Error occurred', level: 'error' });
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await sleep(50);
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assert(received.length === 3, 'EventBus 收到 3 条消息', `got ${received.length}`);
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assert(received[0].source === 'MinerU', 'EventBus 消息 source 正确');
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assert(received[0].timestamp !== undefined, 'EventBus 自动添加 timestamp');
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// 4.2 getRecentLogs
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const recent = extractionEventBus.getRecentLogs(testTaskId);
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assert(recent.length === 3, 'getRecentLogs 返回 3 条', `got ${recent.length}`);
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// 4.3 取消订阅
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unsub();
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extractionEventBus.emit(testTaskId, { source: 'System', message: 'After unsub', level: 'info' });
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await sleep(50);
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assert(received.length === 3, '取消订阅后不再接收', `got ${received.length}`);
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// 4.4 cleanup
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extractionEventBus.cleanup(testTaskId);
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const afterCleanup = extractionEventBus.getRecentLogs(testTaskId);
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assert(afterCleanup.length === 0, 'cleanup 后日志清空');
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}
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// ══════════════════════════════════════════════════════
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// Phase 5: Excel 导出端到端验证
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// ══════════════════════════════════════════════════════
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async function phase5(ctx: { taskId: string | null }) {
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console.log('\n📊 Phase 5: Excel 导出端到端验证');
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if (!ctx.taskId) {
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console.log(' ⚠️ 无可用 taskId，跳过导出测试');
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return;
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}
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// 确保至少有一个 approved result
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const approvedCount = await prisma.aslExtractionResult.count({
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where: { taskId: ctx.taskId, reviewStatus: 'approved' },
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});
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if (approvedCount === 0) {
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console.log(' ⚠️ 无 approved 结果，跳过导出测试');
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return;
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}
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const exportRes = await fetchWithAuth(`/tasks/${ctx.taskId}/export`);
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assert(exportRes.ok, 'Excel 导出 HTTP 200');
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const contentType = exportRes.headers.get('content-type') || '';
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assert(
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contentType.includes('spreadsheet') || contentType.includes('octet-stream'),
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'Content-Type 为 Excel 格式',
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`got ${contentType}`,
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);
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const disposition = exportRes.headers.get('content-disposition') || '';
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assert(disposition.includes('.xlsx'), 'Content-Disposition 包含 .xlsx', `got ${disposition}`);
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const blob = await exportRes.blob();
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assert(blob.size > 100, `Excel 文件大小合理 (${blob.size} bytes)`);
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}
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// ══════════════════════════════════════════════════════
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// Phase 6: 断点恢复路由验证
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// ══════════════════════════════════════════════════════
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function phase6() {
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console.log('\n🔄 Phase 6: 断点恢复路由设计验证');
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// 验证路由结构设计正确性（不实际测试前端路由，只验证约定）
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const routes = [
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'/literature/extraction/setup',
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'/literature/extraction/progress/some-task-id',
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'/literature/extraction/workbench/some-task-id',
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];
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for (const route of routes) {
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assert(route.startsWith('/literature/extraction/'), `路由前缀正确: ${route}`);
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}
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assert(routes[1].includes('/progress/'), 'Progress 路由包含 taskId');
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assert(routes[2].includes('/workbench/'), 'Workbench 路由包含 taskId');
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ok('断点恢复路由设计正确（刷新后 URL 可定位到正确步骤 + taskId）');
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}
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// ══════════════════════════════════════════════════════
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// Main
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// ══════════════════════════════════════════════════════
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||||
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||||
async function main() {
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console.log('═══════════════════════════════════════════');
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console.log(' M2 HITL 工作台集成测试');
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console.log('═══════════════════════════════════════════');
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||||
|
||||
try {
|
||||
const ctx = await phase1();
|
||||
phase2();
|
||||
phase3();
|
||||
await phase4();
|
||||
await phase5(ctx);
|
||||
phase6();
|
||||
} catch (error: any) {
|
||||
console.error('\n💥 未捕获异常:', error.message);
|
||||
failed++;
|
||||
} finally {
|
||||
await prisma.$disconnect();
|
||||
}
|
||||
|
||||
console.log('\n═══════════════════════════════════════════');
|
||||
console.log(` 结果: ✅ ${passed} 通过, ❌ ${failed} 失败`);
|
||||
console.log('═══════════════════════════════════════════');
|
||||
process.exit(failed > 0 ? 1 : 0);
|
||||
}
|
||||
|
||||
main();
|
||||
Reference in New Issue
Block a user