npm - @monoes/monograph - Versions diffs - 1.5.2 → 1.5.4 - Mend

@monoes/monograph 1.5.2 → 1.5.4

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.

Files changed (504) hide show

package/.monodesign/hook.cache.json +1 -1
package/__tests__/integration/build-atomicity.test.ts +61 -0
package/__tests__/integration/call-attribution.test.ts +116 -0
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package/coverage/src/analysis/changed-files.ts.html +304 -0
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package/coverage/src/analysis/churn-cache.ts.html +622 -0
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package/coverage/src/analysis/churn.ts.html +874 -0
package/coverage/src/analysis/cluster-quality.ts.html +511 -0
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package/coverage/src/analysis/corpus-health.ts.html +208 -0
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package/coverage/src/export/gexf.ts.html +262 -0
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+<span class="cline-any cline-neutral">&nbsp;</span></td><td class="text"><pre class="prettyprint lang-js">import { resolve, join } from 'path';
+import { execSync } from 'child_process';
+import Graph from 'graphology';
+import { openDb, closeDb } from '../storage/db.js';
+import { PipelineRunner } from './runner.js';
+import { scanPhase } from './phases/scan.js';
+import { structurePhase } from './phases/structure.js';
+import { parsePhase } from './phases/parse.js';
+import { markdownPhase } from './phases/markdown.js';
+import { routesPhase } from './phases/routes.js';
+import { toolsPhase } from './phases/tools.js';
+import { ormPhase } from './phases/orm.js';
+import { crossFilePhase } from './phases/cross-file.js';
+import { scopeResolutionPhase, clearWorkspacePackageMapCache } from './phases/scope-resolution.js';
+import { mroPhase } from './phases/mro.js';
+import { communitiesPhase } from './phases/communities.js';
+import { processesPhase } from './phases/processes.js';
+import { godNodesPhase } from './phases/god-nodes.js';
+import { surprisesPhase } from './phases/surprises.js';
+import { suggestPhase } from './phases/suggest.js';
+import { variablesPhase } from './phases/variables-phase.js';
+import { wildcardSynthesisPhase } from './phases/wildcard-phase.js';
+import { frameworkDetectPhase } from './phases/framework-detect.js';
+import { importResolverPhase } from './phases/import-resolver.js';
+import { bridgeResolverPhase } from './phases/bridge-resolver.js';
+import type { PipelineOptions, PipelineContext } from './types.js';
+import { DEFAULT_OPTIONS } from './types.js';
+import type { PipelineProgress, SuggestedQuestion } from '../types.js';
+import { generateGraphReport } from '../reporting/graph-report.js';
+import { analyzeChurn } from '../analysis/churn.js';
+import { ExtractionCache } from '../cache/extraction-cache.js';
+&nbsp;
+function getCurrentCommitHash(repoPath: string): string | null {
+  try {
+    return execSync('git rev-parse HEAD', { cwd: repoPath, encoding: 'utf8' }).trim();
+  } catch {
+    return null;
+  }
+}
+&nbsp;
+export interface BuildOptions extends Partial&lt;PipelineOptions&gt; {
+  onProgress?: (p: PipelineProgress) =&gt; void;
+  force?: boolean;
+  /** When true, skip the full rebuild if the index is already fresh (matches HEAD). Default false. */
+  incremental?: boolean;
+}
+&nbsp;
+// Cross-process build mutex. Callers arrive from several independent entry points
+// (session-start hook, MCP staleness auto-build, CLI, watcher), each with its own
+// ad-hoc lock file that the others don't know about — concurrent builds then fail
+// with "database is locked". Serialize here, the one place all builders pass through.
+async function acquireBuildLock(dbPath: string): Promise&lt;(() =&gt; void) | null&gt; {
+  const { writeFileSync, readFileSync, statSync, unlinkSync, mkdirSync } = await import('fs');
+  const { dirname } = await import('path');
+  const lockPath = dbPath + '.build-lock';
+  mkdirSync(dirname(lockPath), { recursive: true });
+  const tryAcquire = (): boolean =&gt; {
+    try { writeFileSync(lockPath, String(process.pid), { flag: 'wx' }); return true; }
+    catch { <span class="cstat-no" title="statement not covered" >return false; }</span>
+  };
+  <span class="missing-if-branch" title="if path not taken" >I</span>if (!tryAcquire()) {
+    // Reclaim if the holder is dead or the lock is older than 30 minutes
+    let stale = <span class="cstat-no" title="statement not covered" >false;</span>
+<span class="cstat-no" title="statement not covered" >    try {</span>
+      const pid = <span class="cstat-no" title="statement not covered" >parseInt(readFileSync(lockPath, 'utf8'), 10);</span>
+<span class="cstat-no" title="statement not covered" >      try { <span class="cstat-no" title="statement not covered" >process.kill(pid, 0); }</span> catch { <span class="cstat-no" title="statement not covered" >stale = true; }</span></span>
+<span class="cstat-no" title="statement not covered" >      if (!stale &amp;&amp; Date.now() - statSync(lockPath).mtimeMs &gt; 30 * 60 * 1000) <span class="cstat-no" title="statement not covered" >stale = true;</span></span>
+    } catch { <span class="cstat-no" title="statement not covered" >stale = true; }</span>
+<span class="cstat-no" title="statement not covered" >    if (!stale) <span class="cstat-no" title="statement not covered" >return null;</span></span>
+<span class="cstat-no" title="statement not covered" >    try { <span class="cstat-no" title="statement not covered" >unlinkSync(lockPath); }</span> catch { /* raced with another reclaimer */ }</span>
+<span class="cstat-no" title="statement not covered" >    if (!tryAcquire()) <span class="cstat-no" title="statement not covered" >return null;</span></span>
+  }
+  return () =&gt; { try { unlinkSync(lockPath); } catch { /* already gone */ } };
+}
+&nbsp;
+export async function buildAsync(repoPath: string, options: BuildOptions = {}): Promise&lt;void&gt; {
+  const dbPath = resolve(join(repoPath, '.monomind', 'monograph.db'));
+  const fullOptions: PipelineOptions = { ...DEFAULT_OPTIONS, ...options };
+  clearWorkspacePackageMapCache(repoPath);
+&nbsp;
+  const releaseLock = await acquireBuildLock(dbPath);
+  <span class="missing-if-branch" title="if path not taken" >I</span>if (!releaseLock) {
+<span class="cstat-no" title="statement not covered" >    options.onProgress?.({ phase: 'skip', message: 'Another build is in progress — skipping' });</span>
+<span class="cstat-no" title="statement not covered" >    return;</span>
+  }
+  try {
+    await buildAsyncLocked(repoPath, dbPath, fullOptions, options);
+  } finally {
+    releaseLock();
+  }
+}
+&nbsp;
+async function buildAsyncLocked(
+  repoPath: string,
+  dbPath: string,
+  fullOptions: PipelineOptions,
+  options: BuildOptions,
+): Promise&lt;void&gt; {
+&nbsp;
+  // Incremental guard: if the caller requested skip-when-fresh and force is
+  // not set, check staleness before opening the DB for a full write cycle.
+  <span class="missing-if-branch" title="if path not taken" >I</span>if (options.incremental &amp;&amp; <span class="branch-1 cbranch-no" title="branch not covered" >!options.force) {</span>
+    const { existsSync: _existsSync } = <span class="cstat-no" title="statement not covered" >await import('fs');</span>
+<span class="cstat-no" title="statement not covered" >    if (_existsSync(dbPath)) {</span>
+      const { checkStaleness } = <span class="cstat-no" title="statement not covered" >await import('../staleness/git-staleness.js');</span>
+      const <span class="cstat-no" title="statement not covered" >tmpDb = openDb(dbPath);</span>
+<span class="cstat-no" title="statement not covered" >      try {</span>
+        const report = <span class="cstat-no" title="statement not covered" >checkStaleness(tmpDb, resolve(repoPath));</span>
+<span class="cstat-no" title="statement not covered" >        if (!report.isStale &amp;&amp; report.currentCommit !== null) {</span>
+<span class="cstat-no" title="statement not covered" >          options.onProgress?.({ phase: 'skip', message: 'Index is fresh — skipping rebuild' });</span>
+<span class="cstat-no" title="statement not covered" >          return; // Already up-to-date</span>
+        }
+      } finally {
+<span class="cstat-no" title="statement not covered" >        closeDb(tmpDb);</span>
+      }
+    }
+  }
+&nbsp;
+  // Parse-cache eviction — runs once at the start of a full (non-incremental)
+  // build. The cache only ever grows via writes (parse.ts's ExtractionCache);
+  // nothing else prunes entries for files that were deleted/renamed or
+  // haven't been touched in a long time, so it accumulates forever otherwise.
+  <span class="missing-if-branch" title="else path not taken" >E</span>if (!options.incremental) {
+    try {
+      const parseCache = new ExtractionCache(resolve(join(repoPath, '.monomind', 'parse-cache')));
+      const removed = parseCache.prune();
+      <span class="missing-if-branch" title="if path not taken" >I</span>if (removed &gt; 0) {
+<span class="cstat-no" title="statement not covered" >        options.onProgress?.({ phase: 'prune', message: `Parse cache: pruned ${removed} stale entries` });</span>
+      }
+    } catch { /* non-fatal — cache pruning must never block a build */ }
+  }
+&nbsp;
+  const db = openDb(dbPath);
+&nbsp;
+  // The whole build is one SQL transaction: a phase throwing (e.g. issue
+  // #40's FK violation) used to leave whatever earlier phases had already
+  // autocommitted sitting in the DB, silently corrupting the index into a
+  // stale partial state that a later build wouldn't repair (cache hits skip
+  // re-scanning the files that would restore the missing rows). BEGIN/COMMIT/
+  // ROLLBACK are issued directly via db.exec() rather than better-sqlite3's
+  // `.transaction()` helper, which requires a synchronous callback — the
+  // phases below are async. This is still safe: every phase writes through
+  // this same single connection, so SQLite serializes them regardless of how
+  // the JS event loop interleaves the awaits between phases.
+  db.exec('BEGIN');
+  try {
+    const graph = new Graph({ multi: true, type: 'directed' });
+    const ctx: PipelineContext = {
+      repoPath: resolve(repoPath),
+      db, graph,
+      onProgress: options.onProgress ?? (() =&gt; {}),
+      options: fullOptions,
+    };
+&nbsp;
+    const runner = new PipelineRunner([
+      scanPhase, frameworkDetectPhase, structurePhase, parsePhase, variablesPhase,
+      markdownPhase, routesPhase, toolsPhase, ormPhase,
+      crossFilePhase, wildcardSynthesisPhase, importResolverPhase, scopeResolutionPhase,
+      bridgeResolverPhase,
+      mroPhase, communitiesPhase, processesPhase, godNodesPhase, surprisesPhase, suggestPhase,
+    ]);
+&nbsp;
+    const outputs = await runner.run(ctx);
+&nbsp;
+    // Sweep orphaned rows for files that were renamed/deleted since the last build.
+    // This MUST run unconditionally — even when every remaining file cache-hit
+    // (ctx.allFilesCached === true), a file may have been deleted from disk between
+    // builds, which produces zero cache misses but still leaves ghost rows in the DB
+    // unless we compare the DB's known file set against the current on-disk set.
+    const scanOut = outputs.get('scan') as { filePaths: string[] } | undefined;
+    <span class="missing-if-branch" title="else path not taken" >E</span>if (scanOut) {
+      const liveFiles = new Set(scanOut.filePaths.map((f) =&gt; resolve(f)));
+      const staleFiles = (
+        db.prepare('SELECT DISTINCT file_path FROM nodes WHERE file_path IS NOT NULL').all() as { file_path: string }[]
+      )
+        .map((r) =&gt; r.file_path)
+        .filter((f) =&gt; !liveFiles.has(resolve(ctx.repoPath, f)));
+      <span class="missing-if-branch" title="if path not taken" >I</span>if (staleFiles.length &gt; 0) {
+        const deleteStale = <span class="cstat-no" title="statement not covered" >db.<span class="fstat-no" title="function not covered" >transaction((f</span>iles: string[]) =&gt; {</span>
+          const deleteEdges = <span class="cstat-no" title="statement not covered" >db.prepare(`</span>
+            DELETE FROM edges WHERE source_id IN (SELECT id FROM nodes WHERE file_path = ?)
+               OR target_id IN (SELECT id FROM nodes WHERE file_path = ?)
+          `);
+          const deleteNodesStmt = <span class="cstat-no" title="statement not covered" >db.prepare('DELETE FROM nodes WHERE file_path = ?');</span>
+<span class="cstat-no" title="statement not covered" >          for (const f of files) {</span>
+<span class="cstat-no" title="statement not covered" >            deleteEdges.run(f, f);</span>
+<span class="cstat-no" title="statement not covered" >            deleteNodesStmt.run(f);</span>
+          }
+        });
+<span class="cstat-no" title="statement not covered" >        deleteStale(staleFiles);</span>
+      }
+    }
+&nbsp;
+    // Skip expensive report regeneration when all files were cached (nothing changed) —
+    // this is purely a performance optimization, not correctness-critical, so it stays
+    // gated behind allFilesCached.
+    <span class="missing-if-branch" title="else path not taken" >E</span>if (!ctx.allFilesCached) {
+      const suggestOut = outputs.get('suggest') as { questions: SuggestedQuestion[] } | undefined;
+      const questions = suggestOut?.questions ?? <span class="branch-1 cbranch-no" title="branch not covered" >[];</span>
+      await generateGraphReport(resolve(repoPath), undefined, dbPath, questions);
+    }
+&nbsp;
+    // Populate churnScore on File nodes from git history (6-month window)
+    try {
+      const churnResult = await analyzeChurn(ctx.repoPath, '6m');
+      <span class="missing-if-branch" title="if path not taken" >I</span>if (churnResult.files.length &gt; 0) {
+        // Only consider files that exist as graph nodes for normalization —
+        // build artifacts and config files inflate the denominator otherwise
+        const graphFiles = <span class="cstat-no" title="statement not covered" >new Set(</span>
+          (db.prepare("SELECT file_path FROM nodes WHERE label = 'File' AND file_path IS NOT NULL").all() as { file_path: string }[])
+            .<span class="fstat-no" title="function not covered" >map(r</span> =&gt; <span class="cstat-no" title="statement not covered" >r.file_path)</span>,
+        );
+        const graphChurn = <span class="cstat-no" title="statement not covered" >churnResult.files.<span class="fstat-no" title="function not covered" >filter(f</span> =&gt; <span class="cstat-no" title="statement not covered" >graphFiles.has(f.path))</span>;</span>
+        const maxWeighted = <span class="cstat-no" title="statement not covered" >graphChurn.<span class="fstat-no" title="function not covered" >reduce((m</span>, f) =&gt; <span class="cstat-no" title="statement not covered" >f.weightedCommits &gt; m ? f.weightedCommits : m, 0</span>);</span>
+<span class="cstat-no" title="statement not covered" >        if (maxWeighted &gt; 0) {</span>
+          const updateProps = <span class="cstat-no" title="statement not covered" >db.prepare(`</span>
+            UPDATE nodes SET properties = json_set(COALESCE(properties, '{}'), '$.churnScore', ?)
+            WHERE file_path = ? AND label = 'File'
+          `);
+<span class="cstat-no" title="statement not covered" >          db.<span class="fstat-no" title="function not covered" >transaction(() =&gt; {</span></span>
+<span class="cstat-no" title="statement not covered" >            for (const f of graphChurn) {</span>
+<span class="cstat-no" title="statement not covered" >              updateProps.run(f.weightedCommits / maxWeighted, f.path);</span>
+            }
+          })();
+        }
+      }
+    } catch {
+      // churn analysis is non-fatal (e.g. no git history)
+    }
+&nbsp;
+    const hash = getCurrentCommitHash(resolve(repoPath));
+    <span class="missing-if-branch" title="if path not taken" >I</span>if (hash) {
+<span class="cstat-no" title="statement not covered" >      db.prepare("INSERT OR REPLACE INTO index_meta VALUES ('last_commit_hash', ?)").run(hash);</span>
+    } else {
+      const msg = 'Could not determine git HEAD — staleness tracking will be unavailable';
+      <span class="missing-if-branch" title="if path not taken" >I</span>if (options.onProgress) {
+<span class="cstat-no" title="statement not covered" >        options.onProgress({ phase: 'warning', message: msg } as PipelineProgress);</span>
+      } else {
+        process.stderr.write(`[monograph] ${msg}\n`);
+      }
+    }
+    db.prepare("INSERT OR REPLACE INTO index_meta VALUES ('indexed_at', ?)").run(new Date().toISOString());
+    db.exec('COMMIT');
+  } catch (err) {
+    // Best-effort: if the connection is already broken (e.g. the failure was
+    // itself a corrupt-database error), rolling back can throw too — the
+    // original error is what matters and must not be masked by this one.
+    try { db.exec('ROLLBACK'); } catch { /* ignore */ }
+    throw err;
+  } finally {
+    closeDb(db);
+  }
+}
+&nbsp;</pre></td></tr></table></pre>
+                <div class='push'></div><!-- for sticky footer -->
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+                Code coverage generated by
+                <a href="https://istanbul.js.org/" target="_blank" rel="noopener noreferrer">istanbul</a>
+                at 2026-07-25T08:38:16.548Z
+            </div>
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+            window.onload = function () {
+                prettyPrint();
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