dotmd-cli 0.5.0 → 0.6.0

package/bin/dotmd.mjs

@@ -17,6 +17,7 @@ import { runDiff } from '../src/diff.mjs';
 import { runLint } from '../src/lint.mjs';
 import { runRename } from '../src/rename.mjs';
 import { runMigrate } from '../src/migrate.mjs';
+import { runFixRefs, fixBrokenRefs } from '../src/fix-refs.mjs';
 import { die, warn } from '../src/util.mjs';
 
 const __filename = fileURLToPath(import.meta.url);
@@ -29,15 +30,16 @@ const HELP = {
 Commands:
   list [--verbose]       List docs grouped by status (default)
   json                   Full index as JSON
-  check                  Validate frontmatter and references
+  check [flags]          Validate frontmatter and references
   coverage [--json]      Metadata coverage report
   context                Compact briefing (LLM-oriented)
   focus [status]         Detailed view for one status group
   query [filters]        Filtered search
   index [--write]        Generate/update docs.md index block
   status <file> <status> Transition document status
-  archive <file>         Archive (status + move + index regen)
+  archive <file>         Archive (status + move + update refs)
   touch <file>           Bump updated date
+  fix-refs               Auto-fix broken reference paths
   lint [--fix]           Check and auto-fix frontmatter issues
   rename <old> <new>     Rename doc and update references
   migrate <f> <old> <new>  Batch update a frontmatter field
@@ -82,10 +84,33 @@ regenerates the index (if configured).
 
 Use --dry-run (-n) to preview changes without writing anything.`,
 
+  check: `dotmd check — validate frontmatter and references
+
+Options:
+  --errors-only          Show only errors, suppress warnings
+  --fix                  Auto-fix broken references and regenerate index`,
+
   archive: `dotmd archive <file> — archive a document
 
-Sets status to 'archived', moves to the archive directory, regenerates
-the index, and scans for stale references.
+Sets status to 'archived', moves to the archive directory, auto-updates
+references in other docs, and regenerates the index.
+
+Use --dry-run (-n) to preview changes without writing anything.`,
+
+  'fix-refs': `dotmd fix-refs — auto-fix broken reference paths
+
+Scans all docs for reference fields that point to non-existent files,
+then attempts to resolve them by matching the basename against all known
+docs. Fixes are applied by rewriting the frontmatter path.
+
+Use --dry-run (-n) to preview changes without writing anything.`,
+
+  touch: `dotmd touch <file> — bump updated date
+       dotmd touch --git  — bulk-sync dates from git history
+
+Without --git, updates a single file's frontmatter updated date to today.
+With --git, scans all docs (or a specific file) and syncs their updated
+date to match the last git commit date, fixing date drift warnings.
 
 Use --dry-run (-n) to preview changes without writing anything.`,
 
@@ -243,6 +268,7 @@ async function main() {
   if (command === 'lint') { runLint(restArgs, config, { dryRun }); return; }
   if (command === 'rename') { runRename(restArgs, config, { dryRun }); return; }
   if (command === 'migrate') { runMigrate(restArgs, config, { dryRun }); return; }
+  if (command === 'fix-refs') { runFixRefs(restArgs, config, { dryRun }); return; }
 
   const index = buildIndex(config);
 
@@ -265,7 +291,29 @@ async function main() {
   }
 
   if (command === 'check') {
-    process.stdout.write(renderCheck(index, config));
+    const fix = args.includes('--fix');
+    const errorsOnly = args.includes('--errors-only');
+
+    if (fix) {
+      // Auto-fix: broken refs, then lint, then rebuild index
+      const refResult = fixBrokenRefs(config, { dryRun, quiet: false });
+      if (!dryRun) {
+        runLint(['--fix'], config, { dryRun });
+      }
+      if (!dryRun && config.indexPath) {
+        const { renderIndexFile: rif, writeIndex: wi } = await import('../src/index-file.mjs');
+        const freshIndex = buildIndex(config);
+        wi(rif(freshIndex, config), config);
+        process.stdout.write('Index regenerated.\n');
+      }
+      // Show remaining issues
+      const freshIndex = buildIndex(config);
+      process.stdout.write('\n' + renderCheck(freshIndex, config, { errorsOnly }));
+      if (freshIndex.errors.length > 0) process.exitCode = 1;
+      return;
+    }
+
+    process.stdout.write(renderCheck(index, config, { errorsOnly }));
     if (index.errors.length > 0) process.exitCode = 1;
     return;
   }

package/dotmd.config.example.mjs

@@ -35,7 +35,7 @@ export const lifecycle = {
 
 // Taxonomy validation — set fields to null to skip validation
 export const taxonomy = {
-  surfaces: ['frontend', 'backend', 'mobile', 'docs', 'ops', 'platform'],
+  surfaces: ['web', 'ios', 'android', 'mobile', 'full-stack', 'frontend', 'backend', 'api', 'docs', 'ops', 'platform', 'infra', 'design'],
   moduleRequiredFor: ['active', 'ready', 'planned', 'blocked'],
 };
 

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "dotmd-cli",
-  "version": "0.5.0",
+  "version": "0.6.0",
   "description": "Zero-dependency CLI for managing markdown documents with YAML frontmatter — index, query, validate, lifecycle.",
   "type": "module",
   "license": "MIT",

package/src/completions.mjs

@@ -3,7 +3,7 @@ import { die } from './util.mjs';
 const COMMANDS = [
   'list', 'json', 'check', 'coverage', 'context', 'focus', 'query',
   'index', 'status', 'archive', 'touch', 'lint', 'rename', 'migrate',
-  'watch', 'diff', 'init', 'new', 'completions',
+  'fix-refs', 'watch', 'diff', 'init', 'new', 'completions',
 ];
 
 const GLOBAL_FLAGS = ['--config', '--dry-run', '--verbose', '--help', '--version'];
@@ -17,9 +17,12 @@ const COMMAND_FLAGS = {
   coverage: ['--json'],
   new: ['--status', '--title'],
   diff: ['--stat', '--since', '--summarize', '--model'],
+  check: ['--errors-only', '--fix'],
   lint: ['--fix'],
   rename: [],
   migrate: [],
+  'fix-refs': [],
+  touch: ['--git'],
 };
 
 function bashCompletion() {

package/src/fix-refs.mjs

@@ -0,0 +1,113 @@
+import { readFileSync, writeFileSync } from 'node:fs';
+import path from 'node:path';
+import { extractFrontmatter, replaceFrontmatter } from './frontmatter.mjs';
+import { toRepoPath, warn } from './util.mjs';
+import { buildIndex, collectDocFiles } from './index.mjs';
+import { green, dim, yellow } from './color.mjs';
+
+export function runFixRefs(argv, config, opts = {}) {
+  const { dryRun } = opts;
+  const result = fixBrokenRefs(config, { dryRun });
+  if (result.totalFixed === 0 && result.unfixableCount === 0) {
+    process.stdout.write(green('No broken references found.') + '\n');
+  }
+}
+
+/**
+ * Core logic for fixing broken references. Returns { totalFixed, unfixableCount }.
+ * Shared by `dotmd fix-refs` and `dotmd check --fix`.
+ */
+export function fixBrokenRefs(config, opts = {}) {
+  const { dryRun, quiet } = opts;
+  const index = buildIndex(config);
+  const allFiles = collectDocFiles(config);
+
+  // Build a map of basename → absolute path for all docs
+  const basenameMap = new Map();
+  const duplicateBasenames = new Set();
+  for (const filePath of allFiles) {
+    const basename = path.basename(filePath);
+    if (basenameMap.has(basename)) {
+      duplicateBasenames.add(basename);
+    } else {
+      basenameMap.set(basename, filePath);
+    }
+  }
+
+  // Find broken ref errors
+  const brokenRefErrors = index.errors.filter(e =>
+    e.message.includes('does not resolve to an existing file')
+  );
+
+  if (brokenRefErrors.length === 0) {
+    return { totalFixed: 0, unfixableCount: 0 };
+  }
+
+  // Group fixes by doc path
+  const fixesByDoc = new Map();
+  let unfixableCount = 0;
+
+  for (const err of brokenRefErrors) {
+    const match = err.message.match(/entry `([^`]+)` does not resolve/);
+    if (!match) { unfixableCount++; continue; }
+
+    const brokenRef = match[1];
+    const brokenBasename = path.basename(brokenRef);
+
+    if (duplicateBasenames.has(brokenBasename)) {
+      unfixableCount++;
+      continue;
+    }
+
+    const resolved = basenameMap.get(brokenBasename);
+    if (!resolved) { unfixableCount++; continue; }
+
+    const docAbsPath = path.join(config.repoRoot, err.path);
+    const docDir = path.dirname(docAbsPath);
+    const correctRelPath = path.relative(docDir, resolved).split(path.sep).join('/');
+
+    if (correctRelPath === brokenRef) { unfixableCount++; continue; }
+
+    if (!fixesByDoc.has(err.path)) {
+      fixesByDoc.set(err.path, []);
+    }
+    fixesByDoc.get(err.path).push({ brokenRef, correctRelPath });
+  }
+
+  const prefix = dryRun ? dim('[dry-run] ') : '';
+  let totalFixed = 0;
+
+  for (const [docPath, fixes] of fixesByDoc) {
+    const absPath = path.join(config.repoRoot, docPath);
+    let raw = readFileSync(absPath, 'utf8');
+    const { frontmatter: fm } = extractFrontmatter(raw);
+    if (!fm) continue;
+
+    let newFm = fm;
+    for (const { brokenRef, correctRelPath } of fixes) {
+      newFm = newFm.split(brokenRef).join(correctRelPath);
+    }
+
+    if (newFm !== fm && !dryRun) {
+      raw = replaceFrontmatter(raw, newFm);
+      writeFileSync(absPath, raw, 'utf8');
+    }
+
+    if (!quiet) {
+      process.stdout.write(`${prefix}${green('Fixed')}: ${docPath} (${fixes.length} ref${fixes.length > 1 ? 's' : ''})\n`);
+      for (const { brokenRef, correctRelPath } of fixes) {
+        process.stdout.write(`${prefix}  ${dim(`${brokenRef} → ${correctRelPath}`)}\n`);
+      }
+    }
+    totalFixed += fixes.length;
+  }
+
+  if (!quiet) {
+    process.stdout.write(`\n${prefix}${totalFixed} reference${totalFixed !== 1 ? 's' : ''} fixed across ${fixesByDoc.size} file(s).\n`);
+    if (unfixableCount > 0) {
+      process.stdout.write(`${yellow(`${unfixableCount} broken reference(s) could not be auto-resolved`)} (file not found by basename).\n`);
+    }
+  }
+
+  return { totalFixed, unfixableCount };
+}

package/src/lifecycle.mjs

@@ -1,11 +1,11 @@
 import { existsSync, mkdirSync, readFileSync, writeFileSync } from 'node:fs';
 import path from 'node:path';
-import { extractFrontmatter, parseSimpleFrontmatter } from './frontmatter.mjs';
+import { extractFrontmatter, parseSimpleFrontmatter, replaceFrontmatter } from './frontmatter.mjs';
 import { asString, toRepoPath, die, warn, resolveDocPath, escapeRegex } from './util.mjs';
-import { gitMv } from './git.mjs';
+import { gitMv, getGitLastModified } from './git.mjs';
 import { buildIndex, collectDocFiles } from './index.mjs';
 import { renderIndexFile, writeIndex } from './index-file.mjs';
-import { green, dim } from './color.mjs';
+import { green, dim, yellow } from './color.mjs';
 
 export function runStatus(argv, config, opts = {}) {
   const { dryRun } = opts;
@@ -114,20 +114,10 @@ export function runArchive(argv, config, opts = {}) {
     process.stdout.write(`${prefix} Would move: ${oldRepoPath} → ${newRepoPath}\n`);
     if (config.indexPath) process.stdout.write(`${prefix} Would regenerate index\n`);
 
-    // Reference scan is read-only, still useful in dry-run
-    const basename = path.basename(filePath);
-    const references = [];
-    for (const docFile of collectDocFiles(config)) {
-      if (docFile === targetPath) continue;
-      const docRaw = readFileSync(docFile, 'utf8');
-      const { frontmatter: docFm } = extractFrontmatter(docRaw);
-      if (docFm.includes(basename)) {
-        references.push(toRepoPath(docFile, config.repoRoot));
-      }
-    }
-    if (references.length > 0) {
-      process.stdout.write('\nThese docs reference the old path — would need updating:\n');
-      for (const ref of references) process.stdout.write(`- ${ref}\n`);
+    // Preview reference updates
+    const refCount = countRefsToUpdate(filePath, targetPath, config);
+    if (refCount > 0) {
+      process.stdout.write(`${prefix} Would update references in ${refCount} file(s)\n`);
     }
     return;
   }
@@ -140,39 +130,78 @@ export function runArchive(argv, config, opts = {}) {
   const result = gitMv(filePath, targetPath, config.repoRoot);
   if (result.status !== 0) { die(result.stderr || 'git mv failed.'); }
 
+  // Auto-update references in other docs
+  const updatedRefCount = updateRefsAfterMove(filePath, targetPath, config);
+
   if (config.indexPath) {
     const index = buildIndex(config);
     writeIndex(renderIndexFile(index, config), config);
   }
 
   process.stdout.write(`${green('Archived')}: ${oldRepoPath} → ${newRepoPath}\n`);
+  if (updatedRefCount > 0) process.stdout.write(`Updated references in ${updatedRefCount} file(s).\n`);
   if (config.indexPath) process.stdout.write('Index regenerated.\n');
 
-  const basename = path.basename(filePath);
-  const references = [];
-  for (const docFile of collectDocFiles(config)) {
-    if (docFile === targetPath) continue;
-    const docRaw = readFileSync(docFile, 'utf8');
-    const { frontmatter: docFm } = extractFrontmatter(docRaw);
-    if (docFm.includes(basename)) {
-      references.push(toRepoPath(docFile, config.repoRoot));
-    }
-  }
-
-  if (references.length > 0) {
-    process.stdout.write('\nThese docs reference the old path — update reference entries:\n');
-    for (const ref of references) process.stdout.write(`- ${ref}\n`);
-  }
-
-  process.stdout.write('\nNext: commit, then update references if needed.\n');
   try { config.hooks.onArchive?.({ path: newRepoPath, oldStatus }, { oldPath: oldRepoPath, newPath: newRepoPath }); } catch (err) { warn(`Hook 'onArchive' threw: ${err.message}`); }
 }
 
 export function runTouch(argv, config, opts = {}) {
   const { dryRun } = opts;
-  const input = argv[0];
+  const useGit = argv.includes('--git');
+  const positional = [];
+  for (let i = 0; i < argv.length; i++) {
+    if (argv[i] === '--config') { i++; continue; }
+    if (argv[i].startsWith('-')) continue;
+    positional.push(argv[i]);
+  }
+  const input = positional[0];
 
-  if (!input) { die('Usage: dotmd touch <file>'); }
+  // --git mode: bulk-sync frontmatter dates from git history
+  if (useGit) {
+    const allFiles = input ? [resolveDocPath(input, config)].filter(Boolean) : collectDocFiles(config);
+    if (input && allFiles.length === 0) { die(`File not found: ${input}`); }
+
+    const prefix = dryRun ? dim('[dry-run] ') : '';
+    let synced = 0;
+
+    for (const filePath of allFiles) {
+      const repoPath = toRepoPath(filePath, config.repoRoot);
+      const raw = readFileSync(filePath, 'utf8');
+      const { frontmatter } = extractFrontmatter(raw);
+      if (!frontmatter) continue;
+
+      const parsed = parseSimpleFrontmatter(frontmatter);
+      const status = asString(parsed.status);
+      if (config.lifecycle.skipStaleFor.has(status)) continue;
+
+      const fmUpdated = asString(parsed.updated);
+      const gitDate = getGitLastModified(repoPath, config.repoRoot);
+      if (!gitDate) continue;
+
+      const gitDay = gitDate.slice(0, 10);
+      if (fmUpdated === gitDay) continue;
+
+      // Only sync if git is newer than frontmatter
+      const gitMs = new Date(gitDate).getTime();
+      const fmMs = fmUpdated ? new Date(fmUpdated).getTime() : 0;
+      if (fmMs >= gitMs) continue;
+
+      if (!dryRun) {
+        updateFrontmatter(filePath, { updated: gitDay });
+      }
+      process.stdout.write(`${prefix}${green('Synced')}: ${repoPath} (updated → ${gitDay})\n`);
+      synced++;
+    }
+
+    if (synced === 0) {
+      process.stdout.write(green('All frontmatter dates are in sync with git.') + '\n');
+    } else {
+      process.stdout.write(`\n${prefix}${synced} file(s) synced.\n`);
+    }
+    return;
+  }
+
+  if (!input) { die('Usage: dotmd touch <file>\n       dotmd touch --git          Bulk-sync dates from git history'); }
 
   const filePath = resolveDocPath(input, config);
   if (!filePath) { die(`File not found: ${input}\nSearched: ${toRepoPath(config.repoRoot, config.repoRoot) || '.'}, ${toRepoPath(config.docsRoot, config.repoRoot)}`); }
@@ -190,6 +219,69 @@ export function runTouch(argv, config, opts = {}) {
   try { config.hooks.onTouch?.({ path: toRepoPath(filePath, config.repoRoot) }, { path: toRepoPath(filePath, config.repoRoot), date: today }); } catch (err) { warn(`Hook 'onTouch' threw: ${err.message}`); }
 }
 
+/**
+ * After a file moves (archive/unarchive), update frontmatter references in all
+ * docs that pointed to the old location so they point to the new one.
+ */
+function updateRefsAfterMove(oldPath, newPath, config) {
+  const basename = path.basename(oldPath);
+  const allFiles = collectDocFiles(config);
+  let updatedCount = 0;
+
+  for (const docFile of allFiles) {
+    if (docFile === newPath) continue;
+    let raw = readFileSync(docFile, 'utf8');
+    const { frontmatter: fm } = extractFrontmatter(raw);
+    if (!fm || !fm.includes(basename)) continue;
+
+    const docDir = path.dirname(docFile);
+    const oldRelPath = path.relative(docDir, oldPath).split(path.sep).join('/');
+    const newRelPath = path.relative(docDir, newPath).split(path.sep).join('/');
+
+    let newFm = fm;
+
+    // Replace exact relative path
+    if (newFm.includes(oldRelPath)) {
+      newFm = newFm.split(oldRelPath).join(newRelPath);
+    }
+
+    // Also handle ./ prefix variant
+    const dotSlashOld = './' + oldRelPath;
+    if (newFm.includes(dotSlashOld)) {
+      newFm = newFm.split(dotSlashOld).join(newRelPath);
+    }
+
+    if (newFm !== fm) {
+      raw = replaceFrontmatter(raw, newFm);
+      writeFileSync(docFile, raw, 'utf8');
+      updatedCount++;
+    }
+  }
+
+  return updatedCount;
+}
+
+function countRefsToUpdate(oldPath, newPath, config) {
+  const basename = path.basename(oldPath);
+  const allFiles = collectDocFiles(config);
+  let count = 0;
+
+  for (const docFile of allFiles) {
+    if (docFile === newPath) continue;
+    const raw = readFileSync(docFile, 'utf8');
+    const { frontmatter: fm } = extractFrontmatter(raw);
+    if (!fm || !fm.includes(basename)) continue;
+
+    const docDir = path.dirname(docFile);
+    const oldRelPath = path.relative(docDir, oldPath).split(path.sep).join('/');
+    if (fm.includes(oldRelPath) || fm.includes('./' + oldRelPath)) {
+      count++;
+    }
+  }
+
+  return count;
+}
+
 export function updateFrontmatter(filePath, updates) {
   const raw = readFileSync(filePath, 'utf8');
   if (!raw.startsWith('---\n')) throw new Error(`${filePath} has no frontmatter block.`);

package/src/render.mjs

@@ -143,8 +143,8 @@ function _renderContext(index, config) {
   return `${lines.join('\n').trimEnd()}\n`;
 }
 
-export function renderCheck(index, config) {
-  const defaultRenderer = (idx) => _renderCheck(idx);
+export function renderCheck(index, config, opts = {}) {
+  const defaultRenderer = (idx) => _renderCheck(idx, opts);
   if (config.hooks.renderCheck) {
     try { return config.hooks.renderCheck(index, defaultRenderer); }
     catch (err) { warn(`Hook 'renderCheck' threw: ${err.message}`); }
@@ -152,7 +152,8 @@ export function renderCheck(index, config) {
   return defaultRenderer(index);
 }
 
-function _renderCheck(index) {
+function _renderCheck(index, opts = {}) {
+  const { errorsOnly } = opts;
   const lines = ['Check', ''];
   lines.push(`- docs scanned: ${index.docs.length}`);
   lines.push(`- errors: ${index.errors.length}`);
@@ -167,7 +168,7 @@ function _renderCheck(index) {
     lines.push('');
   }
 
-  if (index.warnings.length > 0) {
+  if (!errorsOnly && index.warnings.length > 0) {
     lines.push(yellow('Warnings'));
     for (const issue of index.warnings) {
       lines.push(`- ${issue.path}: ${issue.message}`);