dotmd-cli 0.69.0 → 0.70.1

package/src/git.mjs

@@ -1,6 +1,7 @@
 import { spawnSync } from 'node:child_process';
-import { renameSync } from 'node:fs';
+import { chmodSync, closeSync, existsSync, fsyncSync, linkSync, lstatSync, openSync, readFileSync, renameSync, unlinkSync, writeFileSync } from 'node:fs';
 import path from 'node:path';
+import { createHash, randomUUID } from 'node:crypto';
 
 // Best-effort `git check-ignore` for a path. Returns true only when git
 // definitively reports the path is ignored; any failure (not a repo, git
@@ -22,6 +23,13 @@ export function isGitIgnored(absPath, repoRoot) {
 }
 
 let gitChecked = false;
+function assertSafeGitPaths(paths) {
+  for (const filePath of paths) {
+    if (!filePath || /[\0\r\n]/.test(filePath) || path.isAbsolute(filePath) || filePath.split(/[\\/]/).includes('..')) {
+      throw new Error(`Unsafe repository-relative Git path: ${filePath}`);
+    }
+  }
+}
 function ensureGit() {
   if (gitChecked) return;
   const result = spawnSync('git', ['--version'], { encoding: 'utf8' });
@@ -31,6 +39,10 @@ function ensureGit() {
   gitChecked = true;
 }
 
+function literalGitPathspec(filePath) {
+  return filePath === '.' ? ':(top,literal)' : `:(top,literal)${filePath}`;
+}
+
 export function getGitLastModified(relPath, repoRoot) {
   const result = spawnSync('git', ['log', '-1', '--format=%aI', '--', relPath], {
     cwd: repoRoot,
@@ -50,22 +62,412 @@ export function getGitFirstAdded(relPath, repoRoot) {
   return lines[lines.length - 1] ?? null;
 }
 
-export function getGitLastModifiedBatch(repoRoot) {
-  const result = spawnSync('git', [
-    'log', '--format=commit %aI', '--name-only', '--diff-filter=ACDMR', 'HEAD',
-  ], { cwd: repoRoot, encoding: 'utf8', maxBuffer: 10 * 1024 * 1024 });
-  if (result.error || result.status !== 0) return new Map();
+const DEFAULT_GIT_METADATA_MAX_COMMITS = 10_000;
+const DEFAULT_GIT_METADATA_MAX_BUFFER = 10 * 1024 * 1024;
+const DEFAULT_GIT_METADATA_PATH_BATCH = 256;
+const GIT_METADATA_HISTORY_PER_PATH = 16;
+
+function boundedPositiveInteger(value, fallback, name) {
+  if (value == null) return fallback;
+  if (!Number.isSafeInteger(value) || value < 1) {
+    throw new TypeError(`${name} must be a positive integer`);
+  }
+  return value;
+}
+
+function unavailableGitHistory(result) {
+  if (result.error?.code === 'ENOENT') return true;
+  const detail = `${result.stderr ?? ''}\n${result.error?.message ?? ''}`;
+  return /not a git repository|does not have any commits yet|bad revision|unknown revision|ambiguous argument/i.test(detail);
+}
 
-  const map = new Map();
+function parseGitMetadataOutput(stdout, dates, commits, history, expectedPaths) {
+  const fields = String(stdout ?? '').split('\0');
   let currentDate = null;
-  for (const line of result.stdout.split('\n')) {
-    if (line.startsWith('commit ')) {
-      currentDate = line.slice(7).trim();
-    } else if (line && currentDate && !map.has(line)) {
-      map.set(line, currentDate);
+  let currentCommit = null;
+  for (let i = 0; i < fields.length; i++) {
+    const field = fields[i];
+    if (field === 'dotmd:git-metadata:commit'
+      && /^[0-9a-f]{40,64}$/i.test(fields[i + 1] ?? '')
+      && /^\d{4}-\d{2}-\d{2}T/.test(fields[i + 2] ?? '')) {
+      currentCommit = fields[++i];
+      currentDate = fields[++i];
+      continue;
+    }
+    const filePath = field.startsWith('\n') ? field.slice(1) : field;
+    if (filePath && currentDate && expectedPaths.has(filePath)) {
+      if (!history.has(filePath)) history.set(filePath, []);
+      const entries = history.get(filePath);
+      if (entries.length < GIT_METADATA_HISTORY_PER_PATH && entries.at(-1)?.commit !== currentCommit) {
+        entries.push({ date: currentDate, commit: currentCommit });
+      }
+      if (!dates.has(filePath)) {
+        dates.set(filePath, currentDate);
+        commits.set(filePath, currentCommit);
+      }
+    }
+  }
+}
+
+// Read latest Git dates only for the current managed paths. Every subprocess
+// has explicit history, output, and path-count bounds. Callers must inspect
+// `complete` before using missing dates as evidence that no history exists.
+export function getGitLastModifiedBatch(repoRoot, relPaths, options = {}) {
+  const maxCommits = boundedPositiveInteger(options.maxCommits, DEFAULT_GIT_METADATA_MAX_COMMITS, 'maxCommits');
+  const maxBuffer = boundedPositiveInteger(options.maxBuffer, DEFAULT_GIT_METADATA_MAX_BUFFER, 'maxBuffer');
+  const maxPathsPerBatch = boundedPositiveInteger(options.maxPathsPerBatch, DEFAULT_GIT_METADATA_PATH_BATCH, 'maxPathsPerBatch');
+  const paths = [...new Set(relPaths ?? [])];
+  assertSafeGitPaths(paths);
+  if (paths.length === 0) return { dates: new Map(), commits: new Map(), history: new Map(), complete: true, reason: null };
+  // Full-tree callers can supply a small set of configured root pathspecs for
+  // diff extraction. Revision selection still uses the exact requested paths,
+  // so excluded or unrelated documents cannot consume the commit bound.
+  const scanPaths = options.pathspecs?.length ? [...new Set(options.pathspecs)] : paths;
+  assertSafeGitPaths(scanPaths);
+  const expectedPaths = new Set(paths);
+  const revision = options.revision ?? 'HEAD';
+
+  const dates = new Map();
+  const commitsByPath = new Map();
+  const history = new Map();
+  let reason = null;
+  const revisions = spawnSync('git', ['rev-list', '--stdin', `--max-count=${maxCommits + 1}`, revision], {
+    cwd: repoRoot,
+    encoding: 'utf8',
+    input: `--\n${paths.map(literalGitPathspec).join('\n')}\n`,
+    maxBuffer,
+  });
+  if (revisions.error?.code === 'ENOBUFS') {
+    reason = 'output-limit';
+  } else if (revisions.error || revisions.status !== 0) {
+    if (unavailableGitHistory(revisions)) return { dates, commits: commitsByPath, history, complete: true, reason: null };
+    return { dates, commits: commitsByPath, history, complete: false, reason: 'git-error' };
+  }
+  const revisionList = String(revisions.stdout ?? '')
+    .split('\n')
+    .filter(line => /^[0-9a-f]{40,64}$/i.test(line))
+    .slice(0, maxCommits);
+  if (revisionList.length === 0) return { dates, commits: commitsByPath, history, complete: reason === null, reason };
+  if (!reason && String(revisions.stdout ?? '').trim().split('\n').length > maxCommits) {
+    reason = 'commit-limit';
+  }
+
+  for (let offset = 0; offset < scanPaths.length; offset += maxPathsPerBatch) {
+    const batch = scanPaths.slice(offset, offset + maxPathsPerBatch);
+    const result = spawnSync('git', [
+      'diff-tree', '--stdin', '--root', '-r', '-z', '--format=%x00dotmd:git-metadata:commit%x00%H%x00%aI%x00', '--name-only', '--diff-filter=ACDMR', '--', ...batch.map(literalGitPathspec),
+    ], { cwd: repoRoot, encoding: 'utf8', input: revisionList.join('\n') + '\n', maxBuffer });
+    parseGitMetadataOutput(result.stdout, dates, commitsByPath, history, expectedPaths);
+
+    if (result.error?.code === 'ENOBUFS') {
+      reason = 'output-limit';
+    } else if (result.error || result.status !== 0) {
+      reason = reason ?? 'git-error';
+    }
+  }
+
+  // Reaching the history window is harmless when every requested tracked path
+  // already received a latest date. Only unresolved tracked paths require
+  // older history; untracked files legitimately have no Git date.
+  if (reason === 'commit-limit') {
+    const missing = paths.filter(filePath => !dates.has(filePath));
+    let unresolvedTracked = false;
+    let trackingCheckFailed = false;
+    for (let offset = 0; offset < missing.length; offset += maxPathsPerBatch) {
+      const batch = missing.slice(offset, offset + maxPathsPerBatch);
+      const result = spawnSync('git', ['ls-files', '-z', '--', ...batch.map(literalGitPathspec)], {
+        cwd: repoRoot, encoding: 'utf8', maxBuffer,
+      });
+      if (result.error || result.status !== 0) {
+        trackingCheckFailed = true;
+        break;
+      }
+      if (String(result.stdout ?? '').split('\0').some(Boolean)) {
+        unresolvedTracked = true;
+        break;
+      }
+    }
+    if (!trackingCheckFailed && !unresolvedTracked) reason = null;
+  }
+
+  return { dates, commits: commitsByPath, history, complete: reason === null, reason };
+}
+
+function parseBatchObjects(stdout, count) {
+  const output = Buffer.isBuffer(stdout) ? stdout : Buffer.from(stdout ?? '');
+  const objects = [];
+  let offset = 0;
+  while (objects.length < count && offset < output.length) {
+    const newline = output.indexOf(0x0a, offset);
+    if (newline < 0) return null;
+    const header = output.subarray(offset, newline).toString('utf8');
+    offset = newline + 1;
+    if (header.endsWith(' missing')) {
+      objects.push(null);
+      continue;
+    }
+    const size = Number(header.match(/\s(\d+)$/)?.[1]);
+    if (!Number.isSafeInteger(size) || size < 0 || offset + size > output.length) return null;
+    objects.push(output.subarray(offset, offset + size).toString('utf8'));
+    offset += size;
+    if (output[offset] === 0x0a) offset++;
+  }
+  return objects.length === count ? objects : null;
+}
+
+function withoutUpdatedLine(raw) {
+  if (raw == null) return null;
+  const eol = raw.startsWith('---\r\n') ? '\r\n' : raw.startsWith('---\n') ? '\n' : null;
+  if (!eol) return null;
+  const marker = `${eol}---${eol}`;
+  const end = raw.indexOf(marker, 3 + eol.length);
+  if (end < 0) return null;
+  const frontmatter = raw.slice(3 + eol.length, end).split(eol);
+  const index = frontmatter.findIndex(line => line.startsWith('updated:'));
+  if (index < 0) return { line: null, content: raw };
+  const [line] = frontmatter.splice(index, 1);
+  return { line, content: `---${eol}${frontmatter.join(eol)}${marker}${raw.slice(end + marker.length)}` };
+}
+
+function updatedOnlyPathsByCommit(repoRoot, byCommit, maxBuffer, maxPathsPerBatch) {
+  const entries = [...byCommit].flatMap(([commit, commitPaths]) => commitPaths.map(filePath => ({ commit, filePath })));
+  const paths = new Set();
+  // Blob contents are much larger than path metadata, so keep each bounded
+  // cat-file response comfortably below the shared output cap.
+  const batchSize = Math.min(maxPathsPerBatch, 32);
+  for (let offset = 0; offset < entries.length; offset += batchSize) {
+    const batch = entries.slice(offset, offset + batchSize);
+    if (batch.some(item => item.filePath.includes('\n'))) return { paths: new Set(), complete: false };
+    const specs = batch.flatMap(item => [`${item.commit}:${item.filePath}`, `${item.commit}^:${item.filePath}`]);
+    const result = spawnSync('git', ['cat-file', '--batch'], {
+      cwd: repoRoot, input: specs.join('\n') + '\n', maxBuffer,
+    });
+    if (result.error || result.status !== 0) {
+      return { paths: new Set(), complete: false };
+    }
+    const objects = parseBatchObjects(result.stdout, specs.length);
+    if (!objects) return { paths: new Set(), complete: false };
+    for (let i = 0; i < batch.length; i++) {
+      const current = withoutUpdatedLine(objects[i * 2]);
+      const parent = withoutUpdatedLine(objects[i * 2 + 1]);
+      if (!current || !parent || current.line === parent.line) continue;
+      if (current.content === parent.content) paths.add(`${batch[i].commit}\0${batch[i].filePath}`);
     }
   }
-  return map;
+  return { paths, complete: true };
+}
+
+// Resolve the latest substantive date for paths whose latest commit may only
+// have synchronized the top-level `updated:` line. Callers provide their first
+// bounded history scan so normal paths pay no extra Git cost. Metadata-only
+// paths are grouped by commit, then resolved from the retained history window
+// (with a bounded parent fallback); consecutive sync-only commits are skipped.
+export function getGitLastSubstantiveModifiedBatch(repoRoot, relPaths, initialMetadata, options = {}) {
+  const maxBuffer = boundedPositiveInteger(options.maxBuffer, DEFAULT_GIT_METADATA_MAX_BUFFER, 'maxBuffer');
+  const maxPathsPerBatch = boundedPositiveInteger(options.maxPathsPerBatch, DEFAULT_GIT_METADATA_PATH_BATCH, 'maxPathsPerBatch');
+  const paths = [...new Set(relPaths ?? [])];
+  assertSafeGitPaths(paths);
+  if (paths.length === 0) return { dates: new Map(), commits: new Map(), history: new Map(), complete: true, reason: null };
+
+  const initial = initialMetadata ?? getGitLastModifiedBatch(repoRoot, paths, options);
+  const dates = new Map(initial.dates);
+  const commits = new Map(initial.commits ?? []);
+  const history = new Map(initial.history ?? []);
+  let complete = initial.complete;
+  let reason = initial.reason;
+  const byCommit = new Map();
+  for (const filePath of paths) {
+    const commit = commits.get(filePath);
+    if (!commit) continue;
+    if (!byCommit.has(commit)) byCommit.set(commit, []);
+    byCommit.get(commit).push(filePath);
+  }
+
+  const classification = updatedOnlyPathsByCommit(repoRoot, byCommit, maxBuffer, maxPathsPerBatch);
+  if (!classification.complete) {
+    complete = false;
+    reason = reason ?? 'git-error';
+  }
+
+  for (const [commit, commitPaths] of byCommit) {
+    const metadataOnly = commitPaths.filter(filePath => classification.paths.has(`${commit}\0${filePath}`));
+    if (metadataOnly.length === 0) continue;
+
+    const older = {
+      dates: new Map(), commits: new Map(), history: new Map(),
+      complete: initial.complete, reason: initial.reason,
+    };
+    const unresolved = [];
+    for (const filePath of metadataOnly) {
+      const entries = history.get(filePath) ?? [];
+      const currentIndex = entries.findIndex(entry => entry.commit === commit);
+      const remaining = currentIndex >= 0 ? entries.slice(currentIndex + 1) : [];
+      if (remaining.length === 0) {
+        unresolved.push(filePath);
+        continue;
+      }
+      older.dates.set(filePath, remaining[0].date);
+      older.commits.set(filePath, remaining[0].commit);
+      older.history.set(filePath, remaining);
+    }
+    if (unresolved.length > 0) {
+      older.complete = false;
+      older.reason = older.reason ?? 'commit-limit';
+    }
+    const substantive = getGitLastSubstantiveModifiedBatch(repoRoot, metadataOnly, older, options);
+    complete = complete && substantive.complete;
+    reason = reason ?? substantive.reason;
+    for (const filePath of metadataOnly) {
+      if (substantive.dates.has(filePath)) {
+        dates.set(filePath, substantive.dates.get(filePath));
+        commits.set(filePath, substantive.commits.get(filePath));
+        if (substantive.history.has(filePath)) history.set(filePath, substantive.history.get(filePath));
+      } else {
+        dates.delete(filePath);
+        commits.delete(filePath);
+        history.delete(filePath);
+      }
+    }
+  }
+
+  return { dates, commits, history, complete, reason };
+}
+
+function parseNullPaths(result) {
+  if (result.error || result.status !== 0) return [];
+  return result.stdout.split('\0').filter(Boolean);
+}
+
+function parsePorcelainRecords(result) {
+  if (result.error || result.status !== 0) return [];
+  const fields = result.stdout.split('\0').filter(Boolean);
+  const records = [];
+  for (let i = 0; i < fields.length; i++) {
+    const field = fields[i];
+    if (field.length < 4 || field[2] !== ' ') continue;
+    const status = field.slice(0, 2);
+    records.push({ status, path: field.slice(3) });
+    // In porcelain v1 -z, rename/copy records put the destination first and
+    // the old source path in the following NUL field. The command includes the
+    // destination state, not the now-missing live source.
+    if (/[RC]/.test(status)) i += 1;
+  }
+  return records;
+}
+
+function parseShortOptions(arg, valueOptions = new Set()) {
+  const parsed = { options: new Set(), consumesNext: false };
+  if (!/^-[^-]/.test(arg)) return parsed;
+  const chars = arg.slice(1);
+  for (let i = 0; i < chars.length; i++) {
+    const option = chars[i];
+    parsed.options.add(option);
+    if (valueOptions.has(option)) {
+      parsed.consumesNext = i === chars.length - 1;
+      break; // remaining characters are this option's attached value
+    }
+  }
+  return parsed;
+}
+
+function hasShortOption(args, option, valueOptions = new Set()) {
+  return args.some(arg => parseShortOptions(arg, valueOptions).options.has(option));
+}
+
+function gitPathspecs(args, subcommand) {
+  const separator = args.indexOf('--');
+  if (separator >= 0) return args.slice(separator + 1);
+  const valueFlags = subcommand === 'commit'
+    ? new Set(['-m', '--message', '-F', '--file', '-C', '-c', '--reuse-message', '--reedit-message', '-t', '--template', '--author', '--date', '--cleanup', '--fixup', '--squash', '--trailer'])
+    : new Set(['--chmod', '--pathspec-from-file']);
+  const paths = [];
+  for (let i = 0; i < args.length; i++) {
+    const arg = args[i];
+    if (valueFlags.has(arg)) { i += 1; continue; }
+    if (subcommand === 'commit' && /^-[^-]/.test(arg)) {
+      const short = parseShortOptions(arg, new Set(['m', 'F', 'C', 'c', 't', 'S']));
+      if (short.consumesNext) i += 1;
+      continue;
+    }
+    if (arg.startsWith('-')) continue;
+    paths.push(arg);
+  }
+  return paths;
+}
+
+// Paths a broad `git add`/`git commit` would actually include. Read-only and
+// fail-open: any Git error returns an empty list so the PreToolUse guard never
+// blocks on an uncertain repository state.
+export function inspectGitCommandPaths(subcommand, args, repoRoot) {
+  try {
+    if ((subcommand === 'add' || subcommand === 'stage')
+      && (hasShortOption(args, 'n') || args.includes('--dry-run'))) return [];
+    if (subcommand === 'commit' && args.includes('--dry-run')) return [];
+    const pathspecs = gitPathspecs(args, subcommand);
+    if (subcommand === 'add' || subcommand === 'stage') {
+      const cmd = ['status', '--porcelain=v1', '-z', '--untracked-files=all'];
+      if (pathspecs.length > 0) cmd.push('--', ...pathspecs);
+      const updateOnly = hasShortOption(args, 'u') || args.includes('--update');
+      const records = parsePorcelainRecords(spawnSync('git', cmd, { cwd: repoRoot, encoding: 'utf8' }));
+      const paths = records
+        .filter(record => !updateOnly || record.status !== '??')
+        .map(record => record.path)
+        .filter(candidate => existsSync(path.resolve(repoRoot, candidate)));
+      const forceAll = hasShortOption(args, 'A') || args.includes('--all');
+      if ((hasShortOption(args, 'f') || args.includes('--force')) && (pathspecs.length > 0 || forceAll)) {
+        const ignoredCmd = ['ls-files', '--others', '--ignored', '--exclude-standard', '-z'];
+        if (pathspecs.length > 0) ignoredCmd.push('--', ...pathspecs);
+        paths.push(...parseNullPaths(spawnSync('git', ignoredCmd, { cwd: repoRoot, encoding: 'utf8' })));
+      }
+      return [...new Set(paths)];
+    }
+    if (subcommand !== 'commit') return [];
+
+    const commands = [];
+    const commitValueOptions = new Set(['m', 'F', 'C', 'c', 't', 'S']);
+    const commitAll = args.includes('--all') || hasShortOption(args, 'a', commitValueOptions);
+    if (pathspecs.length > 0) {
+      const hasHead = spawnSync('git', ['rev-parse', '--verify', 'HEAD'], { cwd: repoRoot, encoding: 'utf8' }).status === 0;
+      if (hasHead) commands.push(['diff', 'HEAD', '--name-only', '--diff-filter=ACMR', '-z', '--', ...pathspecs]);
+      else commands.push(['diff', '--cached', '--name-only', '--diff-filter=ACMR', '-z', '--', ...pathspecs]);
+      if (args.includes('-i') || args.includes('--include')) {
+        commands.push(['diff', '--cached', '--name-only', '--diff-filter=ACMR', '-z']);
+      }
+    } else if (commitAll) {
+      // commit -a replaces tracked index entries with worktree state. Comparing
+      // HEAD directly to the worktree models that final commit and avoids a
+      // false deny when a staged prompt change was subsequently reverted.
+      commands.push(['diff', 'HEAD', '--name-only', '--diff-filter=ACMR', '-z']);
+    } else {
+      commands.push(['diff', '--cached', '--name-only', '--diff-filter=ACMR', '-z']);
+    }
+    return [...new Set(commands.flatMap(cmd => parseNullPaths(spawnSync('git', cmd, { cwd: repoRoot, encoding: 'utf8' }))))];
+  } catch {
+    return [];
+  }
+}
+
+export function listStagedPaths(repoRoot) {
+  const result = spawnSync('git', ['diff', '--cached', '--name-only', '--no-renames', '-z'], {
+    cwd: repoRoot,
+    encoding: 'utf8',
+  });
+  if (result.error || result.status !== 0) {
+    throw new Error(`Cannot inspect staged files: ${result.error?.message || result.stderr.trim() || 'git diff failed'}`);
+  }
+  return result.stdout.split('\0').filter(Boolean);
+}
+
+export function assertGitIndex(repoRoot, expectedPaths = []) {
+  const actual = [...new Set(listStagedPaths(repoRoot))].sort();
+  const expected = [...new Set(expectedPaths)].sort();
+  if (actual.length === expected.length && actual.every((item, index) => item === expected[index])) {
+    return actual;
+  }
+
+  const expectedLabel = expected.length > 0 ? expected.join(', ') : 'empty';
+  const actualLabel = actual.length > 0 ? actual.join(', ') : 'empty';
+  throw new Error(`Git index mismatch (expected: ${expectedLabel}; staged: ${actualLabel}). Commit or unstage existing work before releasing.`);
 }
 
 export function gitMv(source, target, repoRoot) {
@@ -91,7 +493,7 @@ export function gitMv(source, target, repoRoot) {
   return { status: result.status, stderr: result.stderr };
 }
 
-function isTracked(source, repoRoot) {
+export function isTracked(source, repoRoot) {
   const relSource = path.isAbsolute(source) ? path.relative(repoRoot, source) : source;
   const result = spawnSync('git', ['ls-files', '--error-unmatch', '--', relSource], {
     cwd: repoRoot,
@@ -100,6 +502,312 @@ function isTracked(source, repoRoot) {
   return result.status === 0;
 }
 
+export function gitIndexLocations(repoRoot) {
+  const result = spawnSync('git', ['rev-parse', '--git-dir'], { cwd: repoRoot, encoding: 'utf8' });
+  if (result.error || result.status !== 0) throw new Error(`Could not locate Git directory: ${result.error?.message || result.stderr.trim()}`);
+  const gitDir = path.resolve(repoRoot, result.stdout.trim());
+  const indexPath = process.env.GIT_INDEX_FILE ? path.resolve(repoRoot, process.env.GIT_INDEX_FILE) : path.join(gitDir, 'index');
+  return { gitDir, indexPath, indexDir: path.dirname(indexPath), lockPath: `${indexPath}.lock` };
+}
+
+function generationFromBytes(bytes, indexPath, mode) {
+  return { exists: true, hash: createHash('sha256').update(bytes).digest('hex'), size: bytes.length, content: bytes.toString('base64'), mode, indexPath };
+}
+
+function captureIndexPath(indexPath) {
+  if (!existsSync(indexPath)) return { exists: false, hash: null, size: 0, content: null, mode: null, indexPath };
+  const stat = lstatSync(indexPath);
+  if (!stat.isFile() || stat.isSymbolicLink()) throw new Error(`Selected Git index is not a regular file: ${indexPath}`);
+  return generationFromBytes(readFileSync(indexPath), indexPath, stat.mode & 0o7777);
+}
+
+export function captureGitIndexGeneration(repoRoot) {
+  return captureIndexPath(gitIndexLocations(repoRoot).indexPath);
+}
+
+export function sameGitIndexGeneration(left, right) {
+  return Boolean(left && right && left.indexPath === right.indexPath && left.exists === right.exists
+    && left.hash === right.hash && left.size === right.size && left.mode === right.mode);
+}
+
+function fsyncIndexDirectory(directory, testHooks, reason) {
+  testHooks?.beforeGitIndexDirectoryFsync?.({ directory, reason });
+  const dirFd = openSync(directory, 'r');
+  try { fsyncSync(dirFd); } catch (err) { if (!['EINVAL', 'ENOTSUP', 'EBADF', 'EISDIR', 'EPERM'].includes(err?.code)) throw err; } finally { closeSync(dirFd); }
+}
+
+function writeGeneration(filePath, generation, mode = generation.mode ?? (0o666 & ~process.umask())) {
+  const bytes = generation.exists ? Buffer.from(generation.content, 'base64') : Buffer.alloc(0);
+  if (generation.exists && (bytes.length !== generation.size || createHash('sha256').update(bytes).digest('hex') !== generation.hash)) throw new Error('Invalid captured Git index generation.');
+  const fd = openSync(filePath, 'wx', mode);
+  try { writeFileSync(fd, bytes); fsyncSync(fd); } finally { closeSync(fd); }
+}
+
+function describePrepared(preparedPath, generation) {
+  const stat = lstatSync(preparedPath);
+  if (!stat.isFile() || stat.isSymbolicLink()) throw new Error(`Prepared Git index is unsafe: ${preparedPath}`);
+  const bytes = readFileSync(preparedPath);
+  return {
+    path: preparedPath,
+    dev: stat.dev,
+    ino: stat.ino,
+    mode: stat.mode & 0o7777,
+    size: bytes.length,
+    hash: createHash('sha256').update(bytes).digest('hex'),
+    generation,
+  };
+}
+
+function preparedMatches(prepared) {
+  try {
+    const stat = lstatSync(prepared.path);
+    if (!stat.isFile() || stat.isSymbolicLink() || stat.dev !== prepared.dev || stat.ino !== prepared.ino || (stat.mode & 0o7777) !== prepared.mode || stat.size !== prepared.size) return false;
+    return createHash('sha256').update(readFileSync(prepared.path)).digest('hex') === prepared.hash;
+  } catch { return false; }
+}
+
+function unlinkPrepared(prepared, testHooks = null, reason = 'prepared-delete') {
+  if (prepared && preparedMatches(prepared)) {
+    unlinkSync(prepared.path);
+    fsyncIndexDirectory(path.dirname(prepared.path), testHooks, reason);
+  }
+}
+
+function prepareMoveIndex(source, target, repoRoot, before, options = {}) {
+  const testHooks = options.testHooks ?? {};
+  const paths = [source, target].map(candidate => path.isAbsolute(candidate) ? path.relative(repoRoot, candidate) : candidate);
+  assertSafeGitPaths(paths);
+  const { indexDir } = gitIndexLocations(repoRoot);
+  const preparedPath = path.join(indexDir, `.dotmd-index-${process.pid}-${randomUUID()}`);
+  const artifactPath = options.artifactPath ?? preparedPath;
+  writeGeneration(artifactPath, before);
+  let seed = { ...describePrepared(artifactPath, before), state: 'preparing', tempPath: preparedPath, work: null };
+  testHooks.afterGitIndexArtifact?.({ before, prepared: seed });
+  if (artifactPath !== preparedPath && before.exists) {
+    try { linkSync(artifactPath, preparedPath); }
+    catch (err) {
+      if (err?.code !== 'EXDEV') throw err;
+      writeGeneration(preparedPath, before);
+      seed = { ...seed, work: describePrepared(preparedPath, before) };
+      testHooks.afterGitIndexWorkSeed?.({ before, prepared: seed });
+    }
+    fsyncIndexDirectory(indexDir, testHooks, 'working-index-link');
+  }
+  testHooks.beforeGitIndexPrepare?.({ preparedPath, before, prepared: seed });
+  const env = { ...process.env, GIT_INDEX_FILE: preparedPath };
+  const result = spawnSync('git', ['add', '-A', '--', paths[1]], {
+    cwd: repoRoot,
+    encoding: 'utf8',
+    env,
+  });
+  let preCheckpointError = null;
+  try { testHooks.afterGitIndexSubprocessBeforeCheckpoint?.({ preparedPath, before, prepared: seed, step: 'target-added', result }); }
+  catch (err) { preCheckpointError = err; }
+  fsyncIndexDirectory(indexDir, testHooks, 'working-index-step');
+  const prepareStep = existsSync(preparedPath) ? { ...seed, work: describePrepared(preparedPath, captureIndexPath(preparedPath)) } : seed;
+  if (prepareStep.work) prepareStep.work.generation.indexPath = before.indexPath;
+  testHooks.afterGitIndexPrepareStep?.({ preparedPath, before, prepared: prepareStep, step: 'target-added' });
+  if (preCheckpointError) throw preCheckpointError;
+  if (result.error || result.status !== 0) {
+    throw new Error(`Could not stage moved document: ${result.error?.message || result.stderr.trim() || 'git add failed'}`);
+  }
+  testHooks.duringGitIndexPrepare?.({ preparedPath, before, prepared: prepareStep, step: 'target-added' });
+  const removed = spawnSync('git', ['update-index', '--remove', '--', paths[0]], { cwd: repoRoot, encoding: 'utf8', env });
+  preCheckpointError = null;
+  try { testHooks.afterGitIndexSubprocessBeforeCheckpoint?.({ preparedPath, before, prepared: prepareStep, step: 'source-removed', result: removed }); }
+  catch (err) { preCheckpointError = err; }
+  fsyncIndexDirectory(indexDir, testHooks, 'working-index-step');
+  const removedStep = existsSync(preparedPath) ? { ...seed, work: describePrepared(preparedPath, captureIndexPath(preparedPath)) } : prepareStep;
+  if (removedStep.work) removedStep.work.generation.indexPath = before.indexPath;
+  testHooks.afterGitIndexPrepareStep?.({ preparedPath, before, prepared: removedStep, step: 'source-removed' });
+  if (preCheckpointError) throw preCheckpointError;
+  if (removed.error || removed.status !== 0) {
+    throw new Error(`Could not stage moved document source removal: ${removed.error?.message || removed.stderr.trim() || 'git update-index failed'}`);
+  }
+  if (before.exists && (lstatSync(preparedPath).mode & 0o7777) !== before.mode) {
+    chmodSync(preparedPath, before.mode);
+    const fd = openSync(preparedPath, 'r+');
+    try { fsyncSync(fd); } finally { closeSync(fd); }
+  }
+  const generation = captureIndexPath(preparedPath);
+  generation.indexPath = before.indexPath;
+  const work = describePrepared(preparedPath, generation);
+  if (artifactPath !== preparedPath) {
+    writeFileSync(artifactPath, readFileSync(preparedPath));
+    chmodSync(artifactPath, generation.mode);
+    const artifactFd = openSync(artifactPath, 'r+');
+    try { fsyncSync(artifactFd); } finally { closeSync(artifactFd); }
+  }
+  const prepared = { ...describePrepared(artifactPath, generation), state: 'prepared', tempPath: preparedPath, work };
+  testHooks.afterGitIndexPrepared?.({ preparedPath, before, generation, prepared });
+  return prepared;
+}
+
+function publishIndexGeneration(repoRoot, expected, desired, prepared, testHooks = {}) {
+  const { indexPath, indexDir, lockPath } = gitIndexLocations(repoRoot);
+  if (expected.indexPath !== indexPath || desired.indexPath !== indexPath) throw new Error('Selected Git index changed since the transaction snapshot; recovery refused to target a different index.');
+  if (!prepared || prepared.state !== 'prepared' || path.dirname(prepared.tempPath) !== indexDir || !path.basename(prepared.tempPath).startsWith('.dotmd-index-') || !preparedMatches(prepared)) throw new Error('Prepared Git index ownership could not be verified.');
+  if ((desired.exists && (prepared.hash !== desired.hash || prepared.size !== desired.size || prepared.mode !== desired.mode)) || (!desired.exists && prepared.size !== 0)) throw new Error('Prepared Git index artifact does not match the desired generation.');
+  const publication = prepared.work ?? prepared;
+  if (!preparedMatches(publication) || (desired.exists && (publication.hash !== desired.hash || publication.size !== desired.size || publication.mode !== desired.mode)) || (!desired.exists && publication.size !== 0)) throw new Error('Selected-directory Git working index does not match the desired generation.');
+  let lockOwned = false;
+  try {
+    linkSync(publication.path, lockPath);
+    lockOwned = true;
+    fsyncIndexDirectory(indexDir, testHooks, 'lock-acquisition');
+  } catch (err) {
+    if (lockOwned) {
+      try {
+        const lock = lstatSync(lockPath);
+        if (lock.dev === publication.dev && lock.ino === publication.ino) {
+          unlinkSync(lockPath);
+          fsyncIndexDirectory(indexDir, null, 'lock-acquisition-rollback');
+        }
+      } catch { /* retain original durability error */ }
+    }
+    if (err?.code === 'EEXIST') throw new Error('Git index is locked by another process; transaction index publication was not attempted.');
+    throw err;
+  }
+  let published = false;
+  try {
+    testHooks.afterGitIndexLock?.({ lockPath, expected, desired });
+    const current = captureIndexPath(indexPath);
+    if (!sameGitIndexGeneration(current, expected)) throw new Error('Git index changed before transaction publication; current staging was preserved.');
+    testHooks.afterGitIndexCompare?.({ lockPath, current, desired });
+    if (desired.exists) {
+      renameSync(lockPath, indexPath);
+      lockOwned = false;
+    } else {
+      if (existsSync(indexPath)) unlinkSync(indexPath);
+      const lock = lstatSync(lockPath);
+      if (!lock.isFile() || lock.isSymbolicLink() || lock.dev !== publication.dev || lock.ino !== publication.ino) throw new Error('Transaction-owned Git index lock was replaced before deletion.');
+      unlinkSync(lockPath);
+      lockOwned = false;
+    }
+    published = true;
+    fsyncIndexDirectory(indexDir, testHooks, 'publication');
+    testHooks.afterGitIndexPublication?.({ indexPath, desired });
+    return desired;
+  } finally {
+    if (!published && lockOwned) {
+      try {
+        const lock = lstatSync(lockPath);
+        if (lock.dev === publication.dev && lock.ino === publication.ino) {
+          unlinkSync(lockPath);
+          fsyncIndexDirectory(indexDir, testHooks, 'failed-lock-delete');
+        }
+      } catch (err) {
+        if (err?.code !== 'ENOENT') throw err;
+      }
+    }
+  }
+}
+
+export function stageMovePathsCas(source, target, repoRoot, before, options = {}) {
+  const prepared = prepareMoveIndex(source, target, repoRoot, before, options);
+  try { return publishIndexGeneration(repoRoot, before, prepared.generation, prepared, options.testHooks); }
+  finally {
+    if (prepared.work && prepared.work.path !== prepared.path) unlinkPrepared(prepared.work, options.testHooks, 'working-index-delete');
+    unlinkPrepared(prepared, options.testHooks);
+  }
+}
+
+export function restoreGitIndexCas(before, ownedAfter, repoRoot, options = {}) {
+  const { indexDir } = gitIndexLocations(repoRoot);
+  const preparedPath = options.artifactPath ?? path.join(indexDir, `.dotmd-index-restore-${process.pid}-${randomUUID()}`);
+  let artifact = null;
+  try {
+    writeGeneration(preparedPath, before);
+    const prepared = before;
+    const tempPath = path.join(indexDir, `.dotmd-index-restore-${process.pid}-${randomUUID()}`);
+    artifact = { ...describePrepared(preparedPath, prepared), state: 'preparing', tempPath, work: null };
+    options.testHooks?.afterGitRestoreArtifact?.({ before, ownedAfter, prepared: artifact });
+    writeGeneration(tempPath, before);
+    const work = describePrepared(tempPath, prepared);
+    artifact = { ...artifact, state: 'prepared', work };
+    options.testHooks?.afterGitRestorePrepared?.({ before, ownedAfter, preparedPath, prepared: artifact });
+    return publishIndexGeneration(repoRoot, ownedAfter, prepared, artifact, options.testHooks);
+  } finally {
+    if (artifact?.work) unlinkPrepared(artifact.work, options.testHooks, 'restore-working-index-delete');
+    unlinkPrepared(artifact, options.testHooks, 'restore-prepared-delete');
+  }
+}
+
+export function reclaimPreparedGitIndex(manifestGitIndex, repoRoot, options = {}) {
+  const prepared = manifestGitIndex?.prepared;
+  if (!prepared) return { cleaned: false, retainedPaths: [] };
+  const retainedPaths = [];
+  const { indexPath, indexDir, lockPath } = gitIndexLocations(repoRoot);
+  if (manifestGitIndex.before?.indexPath !== indexPath || prepared.generation?.indexPath !== indexPath) throw new Error('Recovery environment selects a different Git index than the abandoned transaction.');
+  if (path.dirname(prepared.tempPath) !== indexDir || !path.basename(prepared.tempPath).startsWith('.dotmd-index-')) throw new Error('Abandoned prepared Git index path is unsafe.');
+  if (!existsSync(prepared.path)) {
+    if (existsSync(lockPath)) throw new Error('Git index lock exists without its recorded prepared inode; it was preserved.');
+    if (existsSync(prepared.tempPath)) retainedPaths.push(prepared.tempPath);
+    return { cleaned: false, retainedPaths };
+  }
+  if (!preparedMatches(prepared)) throw new Error('Abandoned prepared Git index ownership could not be verified.');
+  if (existsSync(prepared.tempPath)) {
+    const expectedWork = prepared.work ?? { ...prepared, path: prepared.tempPath };
+    if (!preparedMatches(expectedWork)) {
+      if (prepared.state !== 'preparing') throw new Error('Abandoned Git working index is foreign or unverified; it was preserved.');
+      retainedPaths.push(prepared.tempPath);
+    } else {
+      unlinkPrepared(expectedWork, options.testHooks, 'recovery-working-index-delete');
+    }
+  }
+  if (existsSync(lockPath)) {
+    const lock = lstatSync(lockPath);
+    const publication = prepared.work ?? prepared;
+    if (!lock.isFile() || lock.isSymbolicLink() || lock.dev !== publication.dev || lock.ino !== publication.ino) throw new Error('Git index lock is foreign; it was preserved.');
+    unlinkSync(lockPath);
+    fsyncIndexDirectory(indexDir, options.testHooks, 'recovery-lock-delete');
+  }
+  unlinkPrepared(prepared, options.testHooks, 'recovery-prepared-delete');
+  return { cleaned: true, retainedPaths };
+}
+
+export function stageMovePaths(source, target, repoRoot) {
+  const before = captureGitIndexGeneration(repoRoot);
+  return stageMovePathsCas(source, target, repoRoot, before);
+}
+
+// Legacy selected-path helpers remain read-only compatibility surfaces.
+export function captureGitIndexPaths(paths, repoRoot) {
+  const relative = paths.map(candidate => path.isAbsolute(candidate) ? path.relative(repoRoot, candidate) : candidate);
+  assertSafeGitPaths(relative);
+  const result = spawnSync('git', ['ls-files', '--stage', '-z', '--', ...relative], { cwd: repoRoot, encoding: 'utf8' });
+  if (result.error || result.status !== 0) throw new Error(`Could not snapshot Git index: ${result.error?.message || result.stderr.trim()}`);
+  const records = result.stdout.split('\0').filter(Boolean);
+  return { paths: relative, records, identity: createHash('sha256').update(result.stdout).digest('hex') };
+}
+
+export function restoreGitIndexPathsCas(before, ownedAfter, repoRoot) {
+  const current = captureGitIndexPaths(before.paths, repoRoot);
+  if (!before || !ownedAfter || current.identity !== ownedAfter.identity) {
+    throw new Error(`Git index changed after transaction staging for: ${before.paths.join(', ')}; current staging was preserved.`);
+  }
+  restoreGitIndexPaths(before, repoRoot);
+}
+
+export function restoreGitIndexPaths(snapshot, repoRoot) {
+  assertSafeGitPaths(snapshot.paths);
+  const firstHash = snapshot.records[0]?.match(/^\d+ ([0-9a-f]+) /)?.[1];
+  const removals = snapshot.paths.map(filePath => `0 ${'0'.repeat(firstHash?.length ?? 40)}\t${filePath}\n`);
+  const records = snapshot.records.map(record => {
+    const match = /^(\d+) ([0-9a-f]+) (\d+)\t([\s\S]+)$/.exec(record);
+    if (!match) throw new Error(`Unexpected Git index record: ${record}`);
+    return `${match[1]} ${match[2]} ${match[3]}\t${match[4]}\n`;
+  });
+  const restored = spawnSync('git', ['update-index', '--index-info'], {
+    cwd: repoRoot,
+    encoding: 'utf8',
+    input: [...removals, ...records].join(''),
+  });
+  if (restored.error || restored.status !== 0) {
+    throw new Error(`Could not restore Git index: ${restored.error?.message || restored.stderr.trim() || 'git update-index failed'}`);
+  }
+}
+
 export function gitDiffSince(relPath, sinceDate, repoRoot, opts = {}) {
   ensureGit();
   // Find the last commit at or before sinceDate