doc-freshness-checker 2.0.6 → 2.0.8

package/README.md

@@ -134,6 +134,8 @@ Options:
   --vector-search         Enable semantic vector search for doc-code mismatches
 ```
 
+Incremental mode skips unchanged documents only after a clean run when the effective configuration and project inventory are unchanged. It conservatively revalidates all documents when filesystem or external inputs cannot be fingerprinted safely.
+
 ### Common Examples
 
 ```bash
@@ -350,6 +352,8 @@ const results = await run(config);
 console.log(results.summary);
 ```
 
+`run()` and `runWithConfig()` reject when a matched document cannot be read or an extractor or validator throws. Matched paths confirmed to have disappeared between discovery and reading are ignored as a normal filesystem race.
+
 Key exports:
 
 | Export                                                                    | Purpose                                              |

package/dist/cli.test.js

@@ -122,6 +122,16 @@ describe('runCli', () => {
         expect(logErrorMock).toHaveBeenCalledWith('Error:', 'boom');
         expect(logErrorMock).toHaveBeenCalledWith(thrown.stack);
     });
+    it('returns 1 when the runtime fails', async () => {
+        const logErrorMock = vi.fn();
+        const exitCode = await runCli({}, {
+            loadConfig: vi.fn().mockResolvedValue(makeConfig()),
+            run: vi.fn().mockRejectedValue(new Error('validator crashed')),
+            logError: logErrorMock,
+        });
+        expect(exitCode).toBe(1);
+        expect(logErrorMock).toHaveBeenCalledWith('Error:', 'validator crashed');
+    });
 });
 describe('main', () => {
     it('parses argv and applies options before running', async () => {

package/dist/cli.test.js.map

@@ -1 +1 @@
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+{"version":3,"file":"cli.test.js","sourceRoot":"","sources":["../src/cli.test.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,OAAO,EAAE,OAAO,EAAE,EAAE,EAAE,MAAM,aAAa,CAAC;AACnD,OAAO,EAAE,MAAM,EAAE,MAAM,IAAI,CAAC;AAC5B,OAAO,IAAI,MAAM,MAAM,CAAC;AACxB,OAAO,EAAE,aAAa,EAAE,MAAM,KAAK,CAAC;AACpC,OAAO,EAAE,iBAAiB,EAAE,qBAAqB,EAAE,IAAI,EAAE,eAAe,EAAE,QAAQ,EAAE,MAAM,EAAmB,MAAM,UAAU,CAAC;AAG9H,SAAS,CAAC,GAAG,EAAE;IACb,EAAE,CAAC,eAAe,EAAE,CAAC;AACvB,CAAC,CAAC,CAAC;AAEH,SAAS,UAAU;IACjB,OAAO;QACL,SAAS,EAAE,CAAC,SAAS,CAAC;QACtB,KAAK,EAAE;YACL,WAAW,EAAE,EAAE,OAAO,EAAE,IAAI,EAAE;YAC9B,cAAc,EAAE,EAAE,OAAO,EAAE,IAAI,EAAE;YACjC,OAAO,EAAE,EAAE,OAAO,EAAE,IAAI,EAAE;SAC3B;QACD,aAAa,EAAE,EAAE,OAAO,EAAE,IAAI,EAAE;QAChC,KAAK,EAAE,EAAE,OAAO,EAAE,IAAI,EAAE;KACzB,CAAC;AACJ,CAAC;AAED,SAAS,WAAW,CAAC,MAAc;IACjC,OAAO;QACL,SAAS,EAAE,EAAE;QACb,OAAO,EAAE;YACP,KAAK,EAAE,CAAC;YACR,KAAK,EAAE,CAAC;YACR,MAAM;YACN,QAAQ,EAAE,CAAC;YACX,OAAO,EAAE,CAAC;SACX;KACF,CAAC;AACJ,CAAC;AAED,QAAQ,CAAC,oBAAoB,EAAE,GAAG,EAAE;IAClC,EAAE,CAAC,mCAAmC,EAAE,GAAG,EAAE;QAC3C,MAAM,OAAO,GAAG,eAAe,CAAC;YAC9B,MAAM;YACN,eAAe;YACf,UAAU;YACV,gBAAgB;YAChB,YAAY;YACZ,MAAM;YACN,QAAQ;YACR,mBAAmB;YACnB,YAAY;YACZ,iBAAiB;SAClB,CAAC,CAAC;QAEH,MAAM,CAAC,OAAO,CAAC,MAAM,CAAC,CAAC,IAAI,CAAC,gBAAgB,CAAC,CAAC;QAC9C,MAAM,CAAC,OAAO,CAAC,QAAQ,CAAC,CAAC,IAAI,CAAC,MAAM,CAAC,CAAC;QACtC,MAAM,CAAC,OAAO,CAAC,IAAI,CAAC,CAAC,IAAI,CAAC,mBAAmB,CAAC,CAAC;QAC/C,MAAM,CAAC,OAAO,CAAC,KAAK,CAAC,CAAC,IAAI,CAAC,KAAK,CAAC,CAAC;QAClC,MAAM,CAAC,OAAO,CAAC,YAAY,CAAC,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC;IAC1C,CAAC,CAAC,CAAC;AACL,CAAC,CAAC,CAAC;AAEH,QAAQ,CAAC,mBAAmB,EAAE,GAAG,EAAE;IACjC,EAAE,CAAC,gDAAgD,EAAE,GAAG,EAAE;QACxD,MAAM,MAAM,GAAG,UAAU,EAAE,CAAC;QAC5B,MAAM,OAAO,GAAe;YAC1B,QAAQ,EAAE,UAAU;YACpB,MAAM,EAAE,gBAAgB;YACxB,OAAO,EAAE,IAAI;YACb,QAAQ,EAAE,IAAI;YACd,IAAI,EAAE,SAAS;YACf,KAAK,EAAE,wBAAwB;YAC/B,QAAQ,EAAE,+BAA+B;YACzC,MAAM,EAAE,yBAAyB;YACjC,KAAK,EAAE,KAAK;YACZ,UAAU,EAAE,IAAI;YAChB,KAAK,EAAE,IAAI;YACX,WAAW,EAAE,IAAI;YACjB,YAAY,EAAE,IAAI;SACnB,CAAC;QAEF,iBAAiB,CAAC,MAAM,EAAE,OAAO,CAAC,CAAC;QAEnC,MAAM,CAAC,MAAM,CAAC,SAAS,CAAC,CAAC,OAAO,CAAC,CAAC,UAAU,CAAC,CAAC,CAAC;QAC/C,MAAM,CAAC,MAAM,CAAC,UAAU,CAAC,CAAC,IAAI,CAAC,gBAAgB,CAAC,CAAC;QACjD,MAAM,CAAC,MAAM,CAAC,OAAO,CAAC,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC;QAClC,MAAM,CAAC,MAAM,CAAC,aAAa,EAAE,OAAO,CAAC,CAAC,IAAI,CAAC,KAAK,CAAC,CAAC;QAClD,MAAM,CAAC,MAAM,CAAC,KAAK,EAAE,OAAO,EAAE,OAAO,CAAC,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC;QAClD,MAAM,CAAC,MAAM,CAAC,KAAK,EAAE,CAAC,WAAW,CAAC,EAAE,OAAO,CAAC,CAAC,IAAI,CAAC,KAAK,CAAC,CAAC;QACzD,MAAM,CAAC,MAAM,CAAC,KAAK,EAAE,CAAC,cAAc,CAAC,EAAE,OAAO,CAAC,CAAC,IAAI,CAAC,KAAK,CAAC,CAAC;QAC5D,MAAM,CAAC,MAAM,CAAC,OAAO,CAAC,CAAC,OAAO,CAAC,CAAC,cAAc,EAAE,WAAW,CAAC,CAAC,CAAC;QAC9D,MAAM,CAAC,MAAM,CAAC,aAAa,CAAC,CAAC,OAAO,CAAC,CAAC,cAAc,EAAE,kBAAkB,CAAC,CAAC,CAAC;QAC3E,MAAM,CAAC,MAAM,CAAC,cAAc,CAAC,CAAC,OAAO,CAAC,CAAC,aAAa,EAAE,aAAa,CAAC,CAAC,CAAC;QACtE,MAAM,CAAC,MAAM,CAAC,KAAK,CAAC,CAAC,OAAO,CAAC,EAAE,OAAO,EAAE,KAAK,EAAE,CAAC,CAAC;QACjD,MAAM,CAAC,MAAM,CAAC,UAAU,CAAC,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC;QACrC,MAAM,CAAC,MAAM,CAAC,gBAAgB,EAAE,OAAO,CAAC,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC;QACpD,MAAM,CAAC,MAAM,CAAC,WAAW,EAAE,OAAO,CAAC,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC;QAC/C,MAAM,CAAC,MAAM,CAAC,YAAY,EAAE,OAAO,CAAC,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC;IAClD,CAAC,CAAC,CAAC;AACL,CAAC,CAAC,CAAC;AAEH,QAAQ,CAAC,QAAQ,EAAE,GAAG,EAAE;IACtB,EAAE,CAAC,4CAA4C,EAAE,KAAK,IAAI,EAAE;QAC1D,MAAM,cAAc,GAAG,EAAE,CAAC,EAAE,EAAE,CAAC,iBAAiB,CAAC,UAAU,EAAE,CAAC,CAAC;QAC/D,MAAM,OAAO,GAAG,EAAE,CAAC,EAAE,EAAE,CAAC,iBAAiB,CAAC,WAAW,CAAC,CAAC,CAAC,CAAC,CAAC;QAC1D,MAAM,YAAY,GAAG,EAAE,CAAC,EAAE,EAAE,CAAC;QAE7B,MAAM,QAAQ,GAAG,MAAM,MAAM,CAC3B,EAAE,MAAM,EAAE,yBAAyB,EAAE,EACrC;YACE,UAAU,EAAE,cAAc;YAC1B,GAAG,EAAE,OAAO;YACZ,QAAQ,EAAE,YAAY;SACvB,CACF,CAAC;QAEF,MAAM,CAAC,QAAQ,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC;QACzB,MAAM,CAAC,cAAc,CAAC,CAAC,oBAAoB,CAAC,yBAAyB,CAAC,CAAC;QACvE,MAAM,CAAC,OAAO,CAAC,CAAC,qBAAqB,CAAC,CAAC,CAAC,CAAC;QACzC,MAAM,CAAC,YAAY,CAAC,CAAC,GAAG,CAAC,gBAAgB,EAAE,CAAC;IAC9C,CAAC,CAAC,CAAC;IAEH,EAAE,CAAC,0CAA0C,EAAE,KAAK,IAAI,EAAE;QACxD,MAAM,QAAQ,GAAG,MAAM,MAAM,CAC3B,EAAE,EACF;YACE,UAAU,EAAE,EAAE,CAAC,EAAE,EAAE,CAAC,iBAAiB,CAAC,UAAU,EAAE,CAAC;YACnD,GAAG,EAAE,EAAE,CAAC,EAAE,EAAE,CAAC,iBAAiB,CAAC,WAAW,CAAC,CAAC,CAAC,CAAC;YAC9C,QAAQ,EAAE,EAAE,CAAC,EAAE,EAAE;SAClB,CACF,CAAC;QAEF,MAAM,CAAC,QAAQ,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC;IAC3B,CAAC,CAAC,CAAC;IAEH,EAAE,CAAC,+CAA+C,EAAE,KAAK,IAAI,EAAE;QAC7D,MAAM,YAAY,GAAG,EAAE,CAAC,EAAE,EAAE,CAAC;QAC7B,MAAM,MAAM,GAAG,IAAI,KAAK,CAAC,MAAM,CAAC,CAAC;QAEjC,MAAM,QAAQ,GAAG,MAAM,MAAM,CAC3B,EAAE,OAAO,EAAE,IAAI,EAAE,EACjB;YACE,UAAU,EAAE,EAAE,CAAC,EAAE,EAAE,CAAC,iBAAiB,CAAC,MAAM,CAAC;YAC7C,GAAG,EAAE,EAAE,CAAC,EAAE,EAAE;YACZ,QAAQ,EAAE,YAAY;SACvB,CACF,CAAC;QAEF,MAAM,CAAC,QAAQ,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC;QACzB,MAAM,CAAC,YAAY,CAAC,CAAC,oBAAoB,CAAC,QAAQ,EAAE,MAAM,CAAC,CAAC;QAC5D,MAAM,CAAC,YAAY,CAAC,CAAC,oBAAoB,CAAC,MAAM,CAAC,KAAK,CAAC,CAAC;IAC1D,CAAC,CAAC,CAAC;IAEH,EAAE,CAAC,kCAAkC,EAAE,KAAK,IAAI,EAAE;QAChD,MAAM,YAAY,GAAG,EAAE,CAAC,EAAE,EAAE,CAAC;QAE7B,MAAM,QAAQ,GAAG,MAAM,MAAM,CAC3B,EAAE,EACF;YACE,UA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package/dist/parsers/documentParser.js

@@ -28,32 +28,43 @@ export class DocumentParser {
         });
         const documents = [];
         for (const filePath of files) {
+            let content;
             try {
-                const content = await fs.promises.readFile(filePath, 'utf-8');
-                const relativePath = path.relative(this.config.rootDir || process.cwd(), filePath);
-                const format = this.detectFormat(filePath);
-                const doc = {
-                    path: relativePath,
-                    absolutePath: filePath,
-                    content,
-                    format,
-                    lines: content.split('\n'),
-                    references: [],
-                };
-                // Extract all reference types
-                for (const extractor of this.extractors) {
-                    if (extractor.supportsFormat(format)) {
-                        const refs = extractor.extract(doc);
-                        doc.references.push(...refs);
+                content = await fs.promises.readFile(filePath, 'utf-8');
+            }
+            catch (error) {
+                if (error.code !== 'ENOENT') {
+                    throw error;
+                }
+                try {
+                    await fs.promises.lstat(filePath);
+                }
+                catch (statError) {
+                    if (statError.code === 'ENOENT') {
+                        continue;
                     }
+                    throw error;
                 }
-                documents.push(doc);
+                throw error;
             }
-            catch (error) {
-                if (this.config.verbose) {
-                    console.warn(`Warning: Could not read ${filePath}: ${error.message}`);
+            const relativePath = path.relative(this.config.rootDir || process.cwd(), filePath);
+            const format = this.detectFormat(filePath);
+            const doc = {
+                path: relativePath,
+                absolutePath: filePath,
+                content,
+                format,
+                lines: content.split('\n'),
+                references: [],
+            };
+            // Extract all reference types
+            for (const extractor of this.extractors) {
+                if (extractor.supportsFormat(format)) {
+                    const refs = extractor.extract(doc);
+                    doc.references.push(...refs);
                 }
             }
+            documents.push(doc);
         }
         return documents;
     }

package/dist/parsers/documentParser.js.map

@@ -1 +1 @@
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+{"version":3,"file":"documentParser.js","sourceRoot":"","sources":["../../src/parsers/documentParser.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,MAAM,IAAI,CAAC;AACpB,OAAO,IAAI,MAAM,MAAM,CAAC;AACxB,OAAO,EAAE,IAAI,EAAE,MAAM,MAAM,CAAC;AAI5B;;GAEG;AACH,MAAM,OAAO,cAAc;IACjB,MAAM,CAAqB;IAC3B,UAAU,CAAkB;IAEpC,YAAY,MAA0B;QACpC,IAAI,CAAC,MAAM,GAAG,MAAM,CAAC;QACrB,IAAI,CAAC,UAAU,GAAG,EAAE,CAAC;IACvB,CAAC;IAED;;OAEG;IACH,iBAAiB,CAAC,SAAwB;QACxC,IAAI,CAAC,UAAU,CAAC,IAAI,CAAC,SAAS,CAAC,CAAC;IAClC,CAAC;IAED;;OAEG;IACH,KAAK,CAAC,aAAa;QACjB,MAAM,KAAK,GAAG,MAAM,IAAI,CAAC,IAAI,CAAC,MAAM,CAAC,OAAO,IAAI,EAAE,EAAE;YAClD,MAAM,EAAE,IAAI,CAAC,MAAM,CAAC,OAAO;YAC3B,GAAG,EAAE,IAAI,CAAC,MAAM,CAAC,OAAO;YACxB,QAAQ,EAAE,IAAI;SACf,CAAC,CAAC;QAEH,MAAM,SAAS,GAAe,EAAE,CAAC;QAEjC,KAAK,MAAM,QAAQ,IAAI,KAAK,EAAE,CAAC;YAC7B,IAAI,OAAe,CAAC;YACpB,IAAI,CAAC;gBACH,OAAO,GAAG,MAAM,EAAE,CAAC,QAAQ,CAAC,QAAQ,CAAC,QAAQ,EAAE,OAAO,CAAC,CAAC;YAC1D,CAAC;YACD,OAAO,KAAK,EAAE,CAAC;gBACb,IAAK,KAA+B,CAAC,IAAI,KAAK,QAAQ,EAAE,CAAC;oBACvD,MAAM,KAAK,CAAC;gBACd,CAAC;gBACD,IAAI,CAAC;oBACH,MAAM,EAAE,CAAC,QAAQ,CAAC,KAAK,CAAC,QAAQ,CAAC,CAAC;gBACpC,CAAC;gBACD,OAAO,SAAS,EAAE,CAAC;oBACjB,IAAK,SAAmC,CAAC,IAAI,KAAK,QAAQ,EAAE,CAAC;wBAC3D,SAAS;oBACX,CAAC;oBACD,MAAM,KAAK,CAAC;gBACd,CAAC;gBACD,MAAM,KAAK,CAAC;YACd,CAAC;YACD,MAAM,YAAY,GAAG,IAAI,CAAC,QAAQ,CAAC,IAAI,CAAC,MAAM,CAAC,OAAO,IAAI,OAAO,CAAC,GAAG,EAAE,EAAE,QAAQ,CAAC,CAAC;YACnF,MAAM,MAAM,GAAG,IAAI,CAAC,YAAY,CAAC,QAAQ,CAAC,CAAC;YAE3C,MAAM,GAAG,GAAa;gBACpB,IAAI,EAAE,YAAY;gBAClB,YAAY,EAAE,QAAQ;gBACtB,OAAO;gBACP,MAAM;gBACN,KAAK,EAAE,OAAO,CAAC,KAAK,CAAC,IAAI,CAAC;gBAC1B,UAAU,EAAE,EAAE;aACf,CAAC;YAEF,8BAA8B;YAC9B,KAAK,MAAM,SAAS,IAAI,IAAI,CAAC,UAAU,EAAE,CAAC;gBACxC,IAAI,SAAS,CAAC,cAAc,CAAC,MAAM,CAAC,EAAE,CAAC;oBACrC,MAAM,IAAI,GAAG,SAAS,CAAC,OAAO,CAAC,GAAG,CAAC,CAAC;oBACpC,GAAG,CAAC,UAAU,CAAC,IAAI,CAAC,GAAG,IAAI,CAAC,CAAC;gBAC/B,CAAC;YACH,CAAC;YAED,SAAS,CAAC,IAAI,CAAC,GAAG,CAAC,CAAC;QACtB,CAAC;QAED,OAAO,SAAS,CAAC;IACnB,CAAC;IAED;;OAEG;IACH,YAAY,CAAC,QAAgB;QAC3B,MAAM,GAAG,GAAG,IAAI,CAAC,OAAO,CAAC,QAAQ,CAAC,CAAC,WAAW,EAAE,CAAC;QACjD,MAAM,SAAS,GAAmC;YAChD,KAAK,EAAE,UAAU;YACjB,WAAW,EAAE,UAAU;YACvB,MAAM,EAAE,kBAAkB;YAC1B,OAAO,EAAE,UAAU;YACnB,WAAW,EAAE,UAAU;YACvB,MAAM,EAAE,WAAW;SACpB,CAAC;QACF,OAAO,SAAS,CAAC,GAAG,CAAC,IAAI,WAAW,CAAC;IACvC,CAAC;CACF"}

package/dist/parsers/documentParser.test.js

@@ -2,7 +2,6 @@ import fs from 'fs';
 import path from 'path';
 import { DocumentParser } from './documentParser.js';
 import { BaseExtractor } from './extractors/baseExtractor.js';
-import { captureConsoleWarn } from '../test-utils/console.js';
 class MockExtractor extends BaseExtractor {
     refs;
     constructor(type, refs = []) {
@@ -26,7 +25,6 @@ class MarkdownOnlyExtractor extends BaseExtractor {
 }
 describe('DocumentParser', () => {
     const tmpDir = path.join(process.cwd(), '.doc-freshness-cache', 'parser-test');
-    const captureWarn = captureConsoleWarn;
     const writeDoc = async (fileName, content) => {
         const fullPath = path.join(tmpDir, fileName);
         await fs.promises.writeFile(fullPath, content);
@@ -87,24 +85,70 @@ describe('DocumentParser', () => {
             const docs = await parser.scanDocuments();
             expect(docs[0].references).toHaveLength(0);
         });
-        it('handles unreadable files gracefully in verbose mode', async () => {
+        it('propagates matched-document read failures', async () => {
             const badFile = await writeDoc('bad-file.md', 'content');
             const parser = createParser([path.relative(process.cwd(), badFile)], true);
             const readSpy = vi.spyOn(fs.promises, 'readFile');
-            readSpy.mockRejectedValueOnce(new Error('Permission denied'));
-            const warnSpy = captureWarn();
-            const docs = await parser.scanDocuments();
-            expect(docs).toHaveLength(0);
-            expect(warnSpy).toHaveBeenCalledWith(expect.stringContaining('Permission denied'));
+            readSpy.mockRejectedValueOnce(Object.assign(new Error('Permission denied'), { code: 'EACCES' }));
+            await expect(parser.scanDocuments()).rejects.toThrow('Permission denied');
         });
-        it('silently skips unreadable files in non-verbose mode', async () => {
-            const badFile = await writeDoc('silent-bad.md', 'content');
-            const parser = createParser([path.relative(process.cwd(), badFile)], false);
-            vi.spyOn(fs.promises, 'readFile').mockRejectedValueOnce(new Error('EPERM'));
-            const warnSpy = captureWarn();
-            const docs = await parser.scanDocuments();
-            expect(docs).toHaveLength(0);
-            expect(warnSpy).not.toHaveBeenCalled();
+        it('preserves the read failure when checking whether the path disappeared also fails', async () => {
+            const badFile = await writeDoc('bad-file-stat.md', 'content');
+            const parser = createParser([path.relative(process.cwd(), badFile)]);
+            const readError = Object.assign(new Error('File disappeared while opening'), {
+                code: 'ENOENT',
+                syscall: 'open',
+            });
+            vi.spyOn(fs.promises, 'readFile').mockRejectedValueOnce(readError);
+            vi.spyOn(fs.promises, 'lstat').mockRejectedValueOnce(Object.assign(new Error('Permission denied while checking path'), {
+                code: 'EACCES',
+                syscall: 'lstat',
+            }));
+            await expect(parser.scanDocuments()).rejects.toBe(readError);
+        });
+        it('continues when a matched document disappears before it is read', async () => {
+            const firstFile = await writeDoc('race-a.md', 'first');
+            const missingFile = await writeDoc('race-b.md', 'missing');
+            const lastFile = await writeDoc('race-c.md', 'last');
+            const parser = createParser([firstFile, missingFile, lastFile].map((file) => path.relative(process.cwd(), file)));
+            const contents = new Map([
+                [firstFile, 'first'],
+                [lastFile, 'last'],
+            ]);
+            const readSpy = vi.spyOn(fs.promises, 'readFile').mockImplementation(async (file) => {
+                if (file === missingFile) {
+                    throw Object.assign(new Error('File disappeared'), { code: 'ENOENT' });
+                }
+                return contents.get(file.toString()) ?? '';
+            });
+            const lstatSpy = vi
+                .spyOn(fs.promises, 'lstat')
+                .mockRejectedValueOnce(Object.assign(new Error('File disappeared'), { code: 'ENOENT' }));
+            try {
+                const docs = await parser.scanDocuments();
+                expect(docs.map((doc) => doc.absolutePath).sort()).toEqual([firstFile, lastFile].sort());
+            }
+            finally {
+                readSpy.mockRestore();
+                lstatSpy.mockRestore();
+            }
+        });
+        it('rejects a dangling matched-document symlink', async () => {
+            const linkPath = path.join(tmpDir, 'broken-link.md');
+            await fs.promises.rm(linkPath, { force: true });
+            await fs.promises.symlink('missing-target.md', linkPath);
+            const parser = createParser([path.relative(process.cwd(), linkPath)]);
+            await expect(parser.scanDocuments()).rejects.toMatchObject({ code: 'ENOENT' });
+        });
+        it('propagates ENOENT-coded extractor failures', async () => {
+            const mdFile = await writeDoc('extractor-enoent.md', 'content');
+            const parser = createParser([path.relative(process.cwd(), mdFile)]);
+            const extractor = new MockExtractor('test');
+            vi.spyOn(extractor, 'extract').mockImplementation(() => {
+                throw Object.assign(new Error('Extractor path missing'), { code: 'ENOENT' });
+            });
+            parser.registerExtractor(extractor);
+            await expect(parser.scanDocuments()).rejects.toMatchObject({ code: 'ENOENT' });
         });
         it('uses empty array when include is not set', async () => {
             const parser = new DocumentParser({ rootDir: process.cwd() });

package/dist/parsers/documentParser.test.js.map

@@ -1 +1 @@
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package/dist/runner.js

@@ -27,6 +27,12 @@ import { FreshnessScorer } from './scoring/freshnessScorer.js';
 import { IncrementalChecker } from './utils/incremental.js';
 import { VectorSearch } from './semantic/vectorSearch.js';
 import { loadConfig } from './config/loader.js';
+const REPORTER_OUTPUT = {
+    console: 'console',
+    json: 'stable',
+    markdown: 'timestamped',
+    enhanced: 'timestamped',
+};
 /**
  * Main entry point - run with config object
  */
@@ -94,34 +100,39 @@ export async function run(config) {
     if (config.verbose) {
         console.log('Scanning documentation files...');
     }
-    let documents = await parser.scanDocuments();
+    const allDocuments = await parser.scanDocuments();
+    let documentsToValidate = allDocuments;
     if (config.verbose) {
-        console.log(`Found ${documents.length} documentation files.`);
+        console.log(`Found ${allDocuments.length} documentation files.`);
     }
     // Apply incremental checking if enabled
     let incrementalChecker = null;
-    if (config.incremental?.enabled) {
-        incrementalChecker = new IncrementalChecker(config.cache?.dir || '.doc-freshness-cache');
-        const allDocs = documents;
-        documents = await incrementalChecker.filterChanged(documents);
+    if (config.incremental?.enabled && allDocuments.length > 0) {
+        const stateDir = path.resolve(config.rootDir || process.cwd(), config.cache?.dir || config.graph?.cacheDir || '.doc-freshness-cache');
+        const incrementalInputs = await validationEngine.captureIncrementalInputs(allDocuments);
+        const finalFileReporter = (config.reporters || ['console']).findLast((reporter) => REPORTER_OUTPUT[reporter] === 'stable' || REPORTER_OUTPUT[reporter] === 'timestamped');
+        const inventoryExclusions = config.outputPath && finalFileReporter && REPORTER_OUTPUT[finalFileReporter] === 'timestamped'
+            ? [path.resolve(config.outputPath)]
+            : [];
+        incrementalChecker = new IncrementalChecker(stateDir);
+        documentsToValidate = await incrementalChecker.filterChanged(allDocuments, config, incrementalInputs, inventoryExclusions);
         if (config.verbose) {
-            const stats = incrementalChecker.getStats(allDocs.length, documents.length);
+            const stats = incrementalChecker.getStats(allDocuments.length, documentsToValidate.length);
             console.log(`Incremental mode: checking ${stats.changed} changed files, skipping ${stats.skipped} unchanged.`);
         }
     }
+    else if (config.incremental?.enabled && config.verbose) {
+        console.log('Incremental mode: checking 0 changed files, skipping 0 unchanged.');
+    }
     if (config.verbose) {
-        const totalRefs = documents.reduce((sum, doc) => sum + doc.references.length, 0);
+        const totalRefs = allDocuments.reduce((sum, doc) => sum + doc.references.length, 0);
         console.log(`Extracted ${totalRefs} references.`);
     }
     // Validate references
     if (config.verbose) {
         console.log('Validating references...');
     }
-    const results = await validationEngine.validate(documents);
-    // Save incremental state
-    if (incrementalChecker) {
-        await incrementalChecker.saveState();
-    }
+    const results = await validationEngine.validate(documentsToValidate);
     // Build graph if enabled
     let graph = null;
     let gitTracker = null;
@@ -133,7 +144,7 @@ export async function run(config) {
         const codeIndex = codePatternValidator.getSourceIndex();
         // Build graph
         const graphBuilder = new GraphBuilder(config);
-        graph = await graphBuilder.buildGraph(documents, codeIndex);
+        graph = await graphBuilder.buildGraph(allDocuments, codeIndex);
         if (gitTracker.isGitRepo()) {
             graph.gitCommit = gitTracker.getCurrentCommit();
         }
@@ -146,7 +157,7 @@ export async function run(config) {
         // Calculate freshness scores if enabled
         if (config.freshnessScoring?.enabled) {
             const scorer = new FreshnessScorer(config);
-            freshnessScores = scorer.calculateProjectScores(documents, results, gitTracker, graph);
+            freshnessScores = scorer.calculateProjectScores(allDocuments, results, gitTracker, graph);
         }
     }
     // Run vector search if enabled
@@ -159,7 +170,7 @@ export async function run(config) {
         if (config.verbose) {
             console.log('  Indexing documentation sections...');
         }
-        await vectorSearch.indexDocumentation(documents);
+        await vectorSearch.indexDocumentation(allDocuments);
         // Ensure source index is built (may already be built if graph is enabled)
         if (!codePatternValidator.getSourceIndex()) {
             if (config.verbose) {
@@ -197,6 +208,14 @@ export async function run(config) {
     }
     // Generate reports
     await generateReports(results, config, graph, gitTracker, freshnessScores, vectorMismatches);
+    // Persist only after validation and reporting complete; findings make the next run revalidate everything.
+    if (incrementalChecker) {
+        const clean = results.documents.length === 0 &&
+            !results.vectorMismatches?.length &&
+            !validationEngine.hadInvalidResults() &&
+            !validationEngine.hadIncompleteValidation();
+        await incrementalChecker.saveState(clean);
+    }
     return results;
 }
 /**

package/dist/runner.js.map

@@ -1 +1 @@
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