@claude-flow/cli 3.10.36 → 3.10.38

package/scripts/run-beir-nfcorpus.mjs

@@ -1,231 +1,231 @@
-#!/usr/bin/env node
-// run-beir-nfcorpus.mjs — public benchmark harness for BEIR NFCorpus.
-//
-// Why NFCorpus: smallest BEIR dataset (3.6k docs, 323 test queries) with a
-// well-published BM25 baseline and dense-retriever ceilings — runs end-to-end
-// in <15 min on this hardware.
-//
-// Setup:
-//   mkdir -p /tmp/beir-nfcorpus && cd /tmp/beir-nfcorpus
-//   curl -sL -o nfcorpus.zip 'https://public.ukp.informatik.tu-darmstadt.de/thakur/BEIR/datasets/nfcorpus.zip'
-//   unzip -q nfcorpus.zip
-//
-// Run:
-//   cd /tmp/beir-nfcorpus && rm -rf .claude-flow
-//   node /path/to/scripts/run-beir-nfcorpus.mjs
-//
-// Reports:
-//   - nDCG@10 (graded, BEIR standard)
-//   - MRR@10
-//   - Recall@10, Recall@100
-//   - Published comparisons (BM25, ColBERT, SPLADE, etc.)
-
-import { readFileSync, writeFileSync, mkdirSync, readdirSync, statSync } from 'node:fs';
-import { fileURLToPath } from 'node:url';
-import { dirname, join, resolve } from 'node:path';
-import { performance } from 'node:perf_hooks';
-
-const SCRIPT_DIR = dirname(fileURLToPath(import.meta.url));
-const CLI_ROOT = resolve(SCRIPT_DIR, '..');
-const RUFLO_ROOT = resolve(SCRIPT_DIR, '../../../..');
-const RUNS_DIR = join(RUFLO_ROOT, 'docs', 'benchmarks', 'runs');
-
-const DATA_DIR = process.env.BEIR_DATA_DIR || '/tmp/beir-nfcorpus/nfcorpus';
-const TOP_K = Number(process.env.TOP_K) || 100;     // top-100 for recall@100
-const NDCG_K = 10;
-const MAX_QUERIES = Number(process.env.MAX_QUERIES) || 0;  // 0 = all
-const SKIP_INGEST = process.env.SKIP_INGEST === '1'; // reuse existing store
-
-// Published BEIR NFCorpus baselines (from Thakur et al. 2021 + leaderboard tracker)
-const BASELINES_NDCG10 = {
-  'BM25':            0.325,
-  'DocT5query':      0.328,
-  'SBERT (msmarco)': 0.272,  // dense bi-encoder on MS MARCO
-  'TAS-B':           0.319,
-  'GenQ':            0.319,
-  'ColBERT':         0.305,
-  'SPLADE++':        0.347,  // top dense at time of paper
-  'Contriever':      0.328,
-  'GTR-XL':          0.343,
-  'BGE-large-v1.5':  0.380,  // current ~top-of-class
-};
-
-// ---------------------------------------------------------------------------
-// nDCG with graded relevance (BEIR standard)
-// ---------------------------------------------------------------------------
-
-function dcg(rels, k) {
-  let s = 0;
-  for (let i = 0; i < Math.min(rels.length, k); i++) {
-    s += (Math.pow(2, rels[i]) - 1) / Math.log2(i + 2);
-  }
-  return s;
-}
-
-function ndcg(retrievedDocIds, qrelsMap, k) {
-  const rels = retrievedDocIds.slice(0, k).map((id) => qrelsMap.get(id) ?? 0);
-  const ideal = [...qrelsMap.values()].sort((a, b) => b - a).slice(0, k);
-  const idcg = dcg(ideal, k);
-  return idcg > 0 ? dcg(rels, k) / idcg : 0;
-}
-
-function mrr(retrievedDocIds, qrelsMap, k) {
-  for (let i = 0; i < Math.min(retrievedDocIds.length, k); i++) {
-    if ((qrelsMap.get(retrievedDocIds[i]) ?? 0) > 0) return 1 / (i + 1);
-  }
-  return 0;
-}
-
-function recall(retrievedDocIds, qrelsMap, k) {
-  const totalRelevant = [...qrelsMap.values()].filter((v) => v > 0).length;
-  if (totalRelevant === 0) return 0;
-  let hit = 0;
-  for (let i = 0; i < Math.min(retrievedDocIds.length, k); i++) {
-    if ((qrelsMap.get(retrievedDocIds[i]) ?? 0) > 0) hit++;
-  }
-  return hit / totalRelevant;
-}
-
-// ---------------------------------------------------------------------------
-// Loaders
-// ---------------------------------------------------------------------------
-
-function loadJsonl(path) {
-  const items = [];
-  for (const line of readFileSync(path, 'utf-8').split('\n')) {
-    if (!line.trim()) continue;
-    items.push(JSON.parse(line));
-  }
-  return items;
-}
-
-function loadQrels(path) {
-  // Map<queryId, Map<docId, grade>>
-  const qrels = new Map();
-  const lines = readFileSync(path, 'utf-8').split('\n');
-  for (let i = 1; i < lines.length; i++) {
-    if (!lines[i].trim()) continue;
-    const [qid, did, score] = lines[i].split('\t');
-    if (!qrels.has(qid)) qrels.set(qid, new Map());
-    qrels.get(qid).set(did, Number(score));
-  }
-  return qrels;
-}
-
-// ---------------------------------------------------------------------------
-// Main
-// ---------------------------------------------------------------------------
-
-async function main() {
-  console.log(`# BEIR NFCorpus benchmark (ADR-085)`);
-  console.log(`Data: ${DATA_DIR}`);
-  console.log(`Cwd: ${process.cwd()}`);
-
-  const corpus = loadJsonl(join(DATA_DIR, 'corpus.jsonl'));
-  const queries = loadJsonl(join(DATA_DIR, 'queries.jsonl'));
-  const qrels = loadQrels(join(DATA_DIR, 'qrels/test.tsv'));
-
-  console.log(`Corpus: ${corpus.length} docs, ${queries.length} queries (total), ${qrels.size} eval queries (test split)`);
-
-  const neural = await import(join(CLI_ROOT, 'dist/src/mcp-tools/neural-tools.js'));
-  const tool = neural.neuralTools.find((t) => t.name === 'neural_patterns');
-
-  // §1 — Ingest corpus (id-stable pattern name = doc _id; content = title + text).
-  // Skip if SKIP_INGEST=1 and store already populated.
-  if (!SKIP_INGEST) {
-    console.log(`\nIngesting ${corpus.length} docs...`);
-    const t0 = performance.now();
-    // Batch in chunks to avoid memory pressure.
-    const CHUNK = 200;
-    for (let i = 0; i < corpus.length; i += CHUNK) {
-      const batch = corpus.slice(i, i + CHUNK);
-      await neural.storeNeuralPatterns(batch.map((d) => ({
-        name: d._id,                         // use _id as the stable identifier
-        type: 'beir-nfcorpus',
-        content: `${d.title || ''}\n${d.text || ''}`.slice(0, 4096),
-      })));
-      if ((i + CHUNK) % 1000 === 0 || i + CHUNK >= corpus.length) {
-        const pct = Math.min(100, ((i + CHUNK) / corpus.length * 100)).toFixed(0);
-        const elapsed = (performance.now() - t0) / 1000;
-        console.log(`  ${Math.min(i + CHUNK, corpus.length)}/${corpus.length} (${pct}%) in ${elapsed.toFixed(0)}s`);
-      }
-    }
-    console.log(`Ingest done in ${((performance.now() - t0) / 1000).toFixed(0)}s`);
-  } else {
-    console.log('SKIP_INGEST=1 → reusing existing store');
-  }
-
-  // §2 — Build query lookup (eval queries only).
-  const queriesById = new Map(queries.map((q) => [q._id, q.text]));
-  const evalQueryIds = MAX_QUERIES
-    ? [...qrels.keys()].slice(0, MAX_QUERIES)
-    : [...qrels.keys()];
-
-  // §3 — Run retrieval for each query, compute metrics.
-  console.log(`\nRunning ${evalQueryIds.length} queries...`);
-  let ndcgSum = 0, mrrSum = 0, recall10Sum = 0, recall100Sum = 0;
-  const tQ = performance.now();
-  let queryIdx = 0;
-  for (const qid of evalQueryIds) {
-    const qtext = queriesById.get(qid);
-    if (!qtext) { queryIdx++; continue; }
-    const r = await tool.handler({ action: 'search', query: qtext, mode: 'hybrid', limit: TOP_K, rerank: false });
-    const retrievedIds = (r.results || []).map((m) => m.name);  // we set name = _id
-    const qrelsMap = qrels.get(qid) || new Map();
-    ndcgSum += ndcg(retrievedIds, qrelsMap, NDCG_K);
-    mrrSum += mrr(retrievedIds, qrelsMap, NDCG_K);
-    recall10Sum += recall(retrievedIds, qrelsMap, 10);
-    recall100Sum += recall(retrievedIds, qrelsMap, 100);
-    queryIdx++;
-    if (queryIdx % 50 === 0) {
-      const elapsed = (performance.now() - tQ) / 1000;
-      console.log(`  ${queryIdx}/${evalQueryIds.length} in ${elapsed.toFixed(0)}s — running nDCG@10=${(ndcgSum / queryIdx).toFixed(4)}`);
-    }
-  }
-  const queryMs = performance.now() - tQ;
-  const N = evalQueryIds.length;
-  const ndcg10 = ndcgSum / N;
-  const mrr10 = mrrSum / N;
-  const recall10 = recall10Sum / N;
-  const recall100 = recall100Sum / N;
-
-  console.log(`\n=== Results (N=${N} queries) ===`);
-  console.log(`  nDCG@10:    ${ndcg10.toFixed(4)}`);
-  console.log(`  MRR@10:     ${mrr10.toFixed(4)}`);
-  console.log(`  Recall@10:  ${recall10.toFixed(4)}`);
-  console.log(`  Recall@100: ${recall100.toFixed(4)}`);
-  console.log(`  Avg query latency: ${(queryMs / N).toFixed(0)}ms`);
-
-  console.log(`\n=== vs published NFCorpus nDCG@10 baselines ===`);
-  const ourEntry = { name: 'ruflo hybrid (3.10.25)', score: ndcg10, ours: true };
-  const ranking = [
-    ...Object.entries(BASELINES_NDCG10).map(([name, score]) => ({ name, score, ours: false })),
-    ourEntry,
-  ].sort((a, b) => b.score - a.score);
-  for (const r of ranking) {
-    const marker = r.ours ? ' ← us' : '';
-    console.log(`  ${r.score.toFixed(3)}  ${r.name}${marker}`);
-  }
-  const ourRank = ranking.findIndex((r) => r.ours) + 1;
-  console.log(`\n  Our rank: ${ourRank} / ${ranking.length}`);
-
-  const summary = {
-    runAt: new Date().toISOString(),
-    benchmark: 'beir-nfcorpus',
-    queries: N,
-    corpusSize: corpus.length,
-    metrics: { ndcg10, mrr10, recall10, recall100, avgQueryLatencyMs: queryMs / N },
-    baselines: BASELINES_NDCG10,
-    ourRank,
-    leaderboardLength: ranking.length,
-  };
-  mkdirSync(RUNS_DIR, { recursive: true });
-  const stamp = summary.runAt.replace(/[:.]/g, '-');
-  writeFileSync(join(RUNS_DIR, `beir-nfcorpus-${stamp}.json`), JSON.stringify(summary, null, 2));
-  writeFileSync(join(RUNS_DIR, 'beir-nfcorpus-latest.json'), JSON.stringify(summary, null, 2));
-  console.log(`\nWrote ${join(RUNS_DIR, `beir-nfcorpus-${stamp}.json`)}`);
-
-  process.exit(0);
-}
-
-main().catch((err) => { console.error(err); process.exit(1); });
+#!/usr/bin/env node
+// run-beir-nfcorpus.mjs — public benchmark harness for BEIR NFCorpus.
+//
+// Why NFCorpus: smallest BEIR dataset (3.6k docs, 323 test queries) with a
+// well-published BM25 baseline and dense-retriever ceilings — runs end-to-end
+// in <15 min on this hardware.
+//
+// Setup:
+//   mkdir -p /tmp/beir-nfcorpus && cd /tmp/beir-nfcorpus
+//   curl -sL -o nfcorpus.zip 'https://public.ukp.informatik.tu-darmstadt.de/thakur/BEIR/datasets/nfcorpus.zip'
+//   unzip -q nfcorpus.zip
+//
+// Run:
+//   cd /tmp/beir-nfcorpus && rm -rf .claude-flow
+//   node /path/to/scripts/run-beir-nfcorpus.mjs
+//
+// Reports:
+//   - nDCG@10 (graded, BEIR standard)
+//   - MRR@10
+//   - Recall@10, Recall@100
+//   - Published comparisons (BM25, ColBERT, SPLADE, etc.)
+
+import { readFileSync, writeFileSync, mkdirSync, readdirSync, statSync } from 'node:fs';
+import { fileURLToPath } from 'node:url';
+import { dirname, join, resolve } from 'node:path';
+import { performance } from 'node:perf_hooks';
+
+const SCRIPT_DIR = dirname(fileURLToPath(import.meta.url));
+const CLI_ROOT = resolve(SCRIPT_DIR, '..');
+const RUFLO_ROOT = resolve(SCRIPT_DIR, '../../../..');
+const RUNS_DIR = join(RUFLO_ROOT, 'docs', 'benchmarks', 'runs');
+
+const DATA_DIR = process.env.BEIR_DATA_DIR || '/tmp/beir-nfcorpus/nfcorpus';
+const TOP_K = Number(process.env.TOP_K) || 100;     // top-100 for recall@100
+const NDCG_K = 10;
+const MAX_QUERIES = Number(process.env.MAX_QUERIES) || 0;  // 0 = all
+const SKIP_INGEST = process.env.SKIP_INGEST === '1'; // reuse existing store
+
+// Published BEIR NFCorpus baselines (from Thakur et al. 2021 + leaderboard tracker)
+const BASELINES_NDCG10 = {
+  'BM25':            0.325,
+  'DocT5query':      0.328,
+  'SBERT (msmarco)': 0.272,  // dense bi-encoder on MS MARCO
+  'TAS-B':           0.319,
+  'GenQ':            0.319,
+  'ColBERT':         0.305,
+  'SPLADE++':        0.347,  // top dense at time of paper
+  'Contriever':      0.328,
+  'GTR-XL':          0.343,
+  'BGE-large-v1.5':  0.380,  // current ~top-of-class
+};
+
+// ---------------------------------------------------------------------------
+// nDCG with graded relevance (BEIR standard)
+// ---------------------------------------------------------------------------
+
+function dcg(rels, k) {
+  let s = 0;
+  for (let i = 0; i < Math.min(rels.length, k); i++) {
+    s += (Math.pow(2, rels[i]) - 1) / Math.log2(i + 2);
+  }
+  return s;
+}
+
+function ndcg(retrievedDocIds, qrelsMap, k) {
+  const rels = retrievedDocIds.slice(0, k).map((id) => qrelsMap.get(id) ?? 0);
+  const ideal = [...qrelsMap.values()].sort((a, b) => b - a).slice(0, k);
+  const idcg = dcg(ideal, k);
+  return idcg > 0 ? dcg(rels, k) / idcg : 0;
+}
+
+function mrr(retrievedDocIds, qrelsMap, k) {
+  for (let i = 0; i < Math.min(retrievedDocIds.length, k); i++) {
+    if ((qrelsMap.get(retrievedDocIds[i]) ?? 0) > 0) return 1 / (i + 1);
+  }
+  return 0;
+}
+
+function recall(retrievedDocIds, qrelsMap, k) {
+  const totalRelevant = [...qrelsMap.values()].filter((v) => v > 0).length;
+  if (totalRelevant === 0) return 0;
+  let hit = 0;
+  for (let i = 0; i < Math.min(retrievedDocIds.length, k); i++) {
+    if ((qrelsMap.get(retrievedDocIds[i]) ?? 0) > 0) hit++;
+  }
+  return hit / totalRelevant;
+}
+
+// ---------------------------------------------------------------------------
+// Loaders
+// ---------------------------------------------------------------------------
+
+function loadJsonl(path) {
+  const items = [];
+  for (const line of readFileSync(path, 'utf-8').split('\n')) {
+    if (!line.trim()) continue;
+    items.push(JSON.parse(line));
+  }
+  return items;
+}
+
+function loadQrels(path) {
+  // Map<queryId, Map<docId, grade>>
+  const qrels = new Map();
+  const lines = readFileSync(path, 'utf-8').split('\n');
+  for (let i = 1; i < lines.length; i++) {
+    if (!lines[i].trim()) continue;
+    const [qid, did, score] = lines[i].split('\t');
+    if (!qrels.has(qid)) qrels.set(qid, new Map());
+    qrels.get(qid).set(did, Number(score));
+  }
+  return qrels;
+}
+
+// ---------------------------------------------------------------------------
+// Main
+// ---------------------------------------------------------------------------
+
+async function main() {
+  console.log(`# BEIR NFCorpus benchmark (ADR-085)`);
+  console.log(`Data: ${DATA_DIR}`);
+  console.log(`Cwd: ${process.cwd()}`);
+
+  const corpus = loadJsonl(join(DATA_DIR, 'corpus.jsonl'));
+  const queries = loadJsonl(join(DATA_DIR, 'queries.jsonl'));
+  const qrels = loadQrels(join(DATA_DIR, 'qrels/test.tsv'));
+
+  console.log(`Corpus: ${corpus.length} docs, ${queries.length} queries (total), ${qrels.size} eval queries (test split)`);
+
+  const neural = await import(join(CLI_ROOT, 'dist/src/mcp-tools/neural-tools.js'));
+  const tool = neural.neuralTools.find((t) => t.name === 'neural_patterns');
+
+  // §1 — Ingest corpus (id-stable pattern name = doc _id; content = title + text).
+  // Skip if SKIP_INGEST=1 and store already populated.
+  if (!SKIP_INGEST) {
+    console.log(`\nIngesting ${corpus.length} docs...`);
+    const t0 = performance.now();
+    // Batch in chunks to avoid memory pressure.
+    const CHUNK = 200;
+    for (let i = 0; i < corpus.length; i += CHUNK) {
+      const batch = corpus.slice(i, i + CHUNK);
+      await neural.storeNeuralPatterns(batch.map((d) => ({
+        name: d._id,                         // use _id as the stable identifier
+        type: 'beir-nfcorpus',
+        content: `${d.title || ''}\n${d.text || ''}`.slice(0, 4096),
+      })));
+      if ((i + CHUNK) % 1000 === 0 || i + CHUNK >= corpus.length) {
+        const pct = Math.min(100, ((i + CHUNK) / corpus.length * 100)).toFixed(0);
+        const elapsed = (performance.now() - t0) / 1000;
+        console.log(`  ${Math.min(i + CHUNK, corpus.length)}/${corpus.length} (${pct}%) in ${elapsed.toFixed(0)}s`);
+      }
+    }
+    console.log(`Ingest done in ${((performance.now() - t0) / 1000).toFixed(0)}s`);
+  } else {
+    console.log('SKIP_INGEST=1 → reusing existing store');
+  }
+
+  // §2 — Build query lookup (eval queries only).
+  const queriesById = new Map(queries.map((q) => [q._id, q.text]));
+  const evalQueryIds = MAX_QUERIES
+    ? [...qrels.keys()].slice(0, MAX_QUERIES)
+    : [...qrels.keys()];
+
+  // §3 — Run retrieval for each query, compute metrics.
+  console.log(`\nRunning ${evalQueryIds.length} queries...`);
+  let ndcgSum = 0, mrrSum = 0, recall10Sum = 0, recall100Sum = 0;
+  const tQ = performance.now();
+  let queryIdx = 0;
+  for (const qid of evalQueryIds) {
+    const qtext = queriesById.get(qid);
+    if (!qtext) { queryIdx++; continue; }
+    const r = await tool.handler({ action: 'search', query: qtext, mode: 'hybrid', limit: TOP_K, rerank: false });
+    const retrievedIds = (r.results || []).map((m) => m.name);  // we set name = _id
+    const qrelsMap = qrels.get(qid) || new Map();
+    ndcgSum += ndcg(retrievedIds, qrelsMap, NDCG_K);
+    mrrSum += mrr(retrievedIds, qrelsMap, NDCG_K);
+    recall10Sum += recall(retrievedIds, qrelsMap, 10);
+    recall100Sum += recall(retrievedIds, qrelsMap, 100);
+    queryIdx++;
+    if (queryIdx % 50 === 0) {
+      const elapsed = (performance.now() - tQ) / 1000;
+      console.log(`  ${queryIdx}/${evalQueryIds.length} in ${elapsed.toFixed(0)}s — running nDCG@10=${(ndcgSum / queryIdx).toFixed(4)}`);
+    }
+  }
+  const queryMs = performance.now() - tQ;
+  const N = evalQueryIds.length;
+  const ndcg10 = ndcgSum / N;
+  const mrr10 = mrrSum / N;
+  const recall10 = recall10Sum / N;
+  const recall100 = recall100Sum / N;
+
+  console.log(`\n=== Results (N=${N} queries) ===`);
+  console.log(`  nDCG@10:    ${ndcg10.toFixed(4)}`);
+  console.log(`  MRR@10:     ${mrr10.toFixed(4)}`);
+  console.log(`  Recall@10:  ${recall10.toFixed(4)}`);
+  console.log(`  Recall@100: ${recall100.toFixed(4)}`);
+  console.log(`  Avg query latency: ${(queryMs / N).toFixed(0)}ms`);
+
+  console.log(`\n=== vs published NFCorpus nDCG@10 baselines ===`);
+  const ourEntry = { name: 'ruflo hybrid (3.10.25)', score: ndcg10, ours: true };
+  const ranking = [
+    ...Object.entries(BASELINES_NDCG10).map(([name, score]) => ({ name, score, ours: false })),
+    ourEntry,
+  ].sort((a, b) => b.score - a.score);
+  for (const r of ranking) {
+    const marker = r.ours ? ' ← us' : '';
+    console.log(`  ${r.score.toFixed(3)}  ${r.name}${marker}`);
+  }
+  const ourRank = ranking.findIndex((r) => r.ours) + 1;
+  console.log(`\n  Our rank: ${ourRank} / ${ranking.length}`);
+
+  const summary = {
+    runAt: new Date().toISOString(),
+    benchmark: 'beir-nfcorpus',
+    queries: N,
+    corpusSize: corpus.length,
+    metrics: { ndcg10, mrr10, recall10, recall100, avgQueryLatencyMs: queryMs / N },
+    baselines: BASELINES_NDCG10,
+    ourRank,
+    leaderboardLength: ranking.length,
+  };
+  mkdirSync(RUNS_DIR, { recursive: true });
+  const stamp = summary.runAt.replace(/[:.]/g, '-');
+  writeFileSync(join(RUNS_DIR, `beir-nfcorpus-${stamp}.json`), JSON.stringify(summary, null, 2));
+  writeFileSync(join(RUNS_DIR, 'beir-nfcorpus-latest.json'), JSON.stringify(summary, null, 2));
+  console.log(`\nWrote ${join(RUNS_DIR, `beir-nfcorpus-${stamp}.json`)}`);
+
+  process.exit(0);
+}
+
+main().catch((err) => { console.error(err); process.exit(1); });