skillwiki 0.5.3 → 0.5.4

package/dist/cli.js

@@ -9,7 +9,7 @@ import {
 
 // src/cli.ts
 import { readFileSync as readFileSync10 } from "fs";
-import { join as join38 } from "path";
+import { join as join39 } from "path";
 import { Command as Command2 } from "commander";
 
 // ../shared/src/exit-codes.ts
@@ -60,7 +60,8 @@ var ExitCode = {
   SYNC_PULL_FAILED: 43,
   BACKUP_SYNC_FAILED: 44,
   BACKUP_RESTORE_CONFLICTS: 45,
-  USAGE: 46
+  USAGE: 46,
+  BODY_TRUNCATION_GUARD: 47
 };
 
 // ../shared/src/json-output.ts
@@ -307,11 +308,11 @@ async function runHash(input) {
   }
   const split = splitFrontmatter(text);
   if (!split.ok) return { exitCode: ExitCode.MISSING_CLOSING_DELIMITER, result: split };
-  const bodyBytes = Buffer.from(split.data.body, "utf8");
-  const sha256 = createHash("sha256").update(bodyBytes).digest("hex");
+  const bodyBytes2 = Buffer.from(split.data.body, "utf8");
+  const sha256 = createHash("sha256").update(bodyBytes2).digest("hex");
   return {
     exitCode: ExitCode.OK,
-    result: ok({ path: input.file, sha256, byte_count: bodyBytes.byteLength, humanHint: sha256 })
+    result: ok({ path: input.file, sha256, byte_count: bodyBytes2.byteLength, humanHint: sha256 })
   };
 }
 
@@ -1957,9 +1958,9 @@ async function runStale(input) {
       if (input.project && !project.includes(input.project)) continue;
       let inferred = false;
       if (input.forceScan && !kind) {
-        const basename = t.relPath.split("/").pop();
-        if (!LOOP_CYCLE_PATTERN.test(basename)) {
-          const m = basename.match(KIND_FROM_FILENAME);
+        const basename2 = t.relPath.split("/").pop();
+        if (!LOOP_CYCLE_PATTERN.test(basename2)) {
+          const m = basename2.match(KIND_FROM_FILENAME);
           if (m) {
             kind = m[1];
             inferred = true;
@@ -2362,8 +2363,8 @@ Chronological action log. Newest entries last. Skill writes append entries; lint
 
 // src/commands/lint.ts
 import { existsSync as existsSync3 } from "fs";
-import { readFile as readFile14, writeFile as writeFile8 } from "fs/promises";
-import { join as join18 } from "path";
+import { readFile as readFile15 } from "fs/promises";
+import { join as join19 } from "path";
 
 // src/commands/topic-map-check.ts
 var DEFAULT_THRESHOLD = 200;
@@ -2490,6 +2491,81 @@ async function runDedup(input) {
   };
 }
 
+// src/utils/safe-write.ts
+import { open, readFile as readFile14, rename as rename4, unlink as unlink2, writeFile as writeFile8 } from "fs/promises";
+import { randomBytes } from "crypto";
+import { dirname as dirname7, basename, join as join18 } from "path";
+var DEFAULT_MIN_BODY_RATIO = 0.5;
+var DEFAULT_MIN_OLD_BODY_BYTES = 200;
+function bodyBytes(text) {
+  const split = splitFrontmatter(text);
+  if (!split.ok) return Buffer.byteLength(text, "utf8");
+  return Buffer.byteLength(split.data.body, "utf8");
+}
+async function readIfExists(absPath) {
+  try {
+    return await readFile14(absPath, "utf8");
+  } catch (e) {
+    if (e.code === "ENOENT") return null;
+    throw e;
+  }
+}
+async function safeWritePage(absPath, newContent, opts = {}) {
+  const minRatio = opts.minBodyRatio === void 0 ? DEFAULT_MIN_BODY_RATIO : opts.minBodyRatio;
+  const minOldBytes = opts.minOldBodyBytes ?? DEFAULT_MIN_OLD_BODY_BYTES;
+  let oldContent;
+  try {
+    oldContent = await readIfExists(absPath);
+  } catch (e) {
+    return err("WRITE_FAILED", { path: absPath, phase: "read-existing", message: String(e) });
+  }
+  const isNew = oldContent === null;
+  const oldBodyBytes = isNew ? 0 : bodyBytes(oldContent);
+  const newBodyBytes = bodyBytes(newContent);
+  const bodyRatio = oldBodyBytes > 0 ? newBodyBytes / oldBodyBytes : null;
+  let guardSkippedSmall = false;
+  if (!isNew && minRatio !== null && bodyRatio !== null && bodyRatio < minRatio) {
+    if (oldBodyBytes < minOldBytes) {
+      guardSkippedSmall = true;
+    } else {
+      return err("BODY_TRUNCATION_GUARD", {
+        path: absPath,
+        oldBodyBytes,
+        newBodyBytes,
+        bodyRatio,
+        minBodyRatio: minRatio,
+        hint: "Refusing to write \u2014 new body lost too much content. Likely a parse-modify-serialize bug or a write race. Verify the page source before retrying."
+      });
+    }
+  }
+  if (!isNew && oldContent === newContent) {
+    return ok({ isNew: false, oldBodyBytes, newBodyBytes, bodyRatio, guardSkippedSmall });
+  }
+  const dir = dirname7(absPath);
+  const tmpName = `.${basename(absPath)}.${process.pid}.${randomBytes(6).toString("hex")}.tmp`;
+  const tmpPath = join18(dir, tmpName);
+  try {
+    const handle = await open(tmpPath, "w");
+    try {
+      await handle.writeFile(newContent, "utf8");
+      try {
+        await handle.sync();
+      } catch {
+      }
+    } finally {
+      await handle.close();
+    }
+    await rename4(tmpPath, absPath);
+    return ok({ isNew, oldBodyBytes, newBodyBytes, bodyRatio, guardSkippedSmall });
+  } catch (e) {
+    try {
+      await unlink2(tmpPath);
+    } catch {
+    }
+    return err("WRITE_FAILED", { path: absPath, phase: "atomic-write", message: String(e) });
+  }
+}
+
 // src/commands/raw-body-dedup.ts
 import { createHash as createHash2 } from "crypto";
 async function runRawBodyDedup(vault) {
@@ -2813,7 +2889,7 @@ async function runLint(input) {
         let rawPath = entry.replace(/^"/, "").replace(/"$/, "").replace(/^'/, "").replace(/'$/, "");
         rawPath = rawPath.replace(/^\^\[/, "").replace(/\]$/, "");
         if (!rawPath.startsWith("raw/") && !rawPath.startsWith("_archive/raw/")) continue;
-        if (!existsSync3(join18(input.vault, rawPath)) && !existsSync3(join18(input.vault, rawPath + ".md")) && !rawPath.startsWith("_archive/") && !existsSync3(join18(input.vault, "_archive", rawPath)) && !existsSync3(join18(input.vault, "_archive", rawPath + ".md"))) {
+        if (!existsSync3(join19(input.vault, rawPath)) && !existsSync3(join19(input.vault, rawPath + ".md")) && !rawPath.startsWith("_archive/") && !existsSync3(join19(input.vault, "_archive", rawPath)) && !existsSync3(join19(input.vault, "_archive", rawPath + ".md"))) {
           brokenSourceFlags.push(`${page.relPath}: ${rawPath}`);
         }
       }
@@ -2904,11 +2980,11 @@ async function runLint(input) {
         const slugMatch = String(entry).match(/\[\[([^\]]+)\]\]/);
         if (!slugMatch) continue;
         const slug = slugMatch[1];
-        const knowledgePath = join18(input.vault, "projects", slug, "knowledge.md");
+        const knowledgePath = join19(input.vault, "projects", slug, "knowledge.md");
         if (!existsSync3(knowledgePath)) continue;
         const pageRef = page.relPath.replace(/\.md$/, "");
         try {
-          const knowledgeContent = await readFile14(knowledgePath, "utf8");
+          const knowledgeContent = await readFile15(knowledgePath, "utf8");
           if (!knowledgeContent.includes(`[[${pageRef}]]`)) {
             orphanedProjectPages.push(`${page.relPath}: not in projects/${slug}/knowledge.md`);
           }
@@ -2955,7 +3031,7 @@ async function runLint(input) {
       for (const relPath of legacyPages) {
         try {
           const absPath = `${input.vault}/${relPath}`;
-          const raw = await readFile14(absPath, "utf8");
+          const raw = await readFile15(absPath, "utf8");
           const split = splitFrontmatter(raw);
           if (!split.ok) {
             unresolved.push(relPath);
@@ -3033,7 +3109,11 @@ async function runLint(input) {
 ${rawFm}
 ---
 ${newBody}`;
-          await writeFile8(absPath, newContent, "utf8");
+          const w = await safeWritePage(absPath, newContent);
+          if (!w.ok) {
+            unresolved.push(relPath);
+            continue;
+          }
           fixed.push(relPath);
         } catch {
           unresolved.push(relPath);
@@ -3050,7 +3130,7 @@ ${newBody}`;
       for (const relPath of noOverview) {
         try {
           const absPath = `${input.vault}/${relPath}`;
-          const raw = await readFile14(absPath, "utf8");
+          const raw = await readFile15(absPath, "utf8");
           const split = splitFrontmatter(raw);
           if (!split.ok) {
             unresolved.push(relPath);
@@ -3071,7 +3151,11 @@ ${rawFm}
 ${overviewSection}
 
 ${trimmedBody}`;
-          await writeFile8(absPath, newContent, "utf8");
+          const w = await safeWritePage(absPath, newContent);
+          if (!w.ok) {
+            unresolved.push(relPath);
+            continue;
+          }
           fixed.push(relPath);
         } catch {
           unresolved.push(relPath);
@@ -3087,7 +3171,7 @@ ${trimmedBody}`;
       for (const relPath of missingTldrFlags) {
         try {
           const absPath = `${input.vault}/${relPath}`;
-          const raw = await readFile14(absPath, "utf8");
+          const raw = await readFile15(absPath, "utf8");
           const split = splitFrontmatter(raw);
           if (!split.ok) {
             unresolved.push(relPath);
@@ -3115,7 +3199,11 @@ ${trimmedBody}`;
           const newContent = `---
 ${trimmedFm}---
 ${lines.join("\n")}`;
-          await writeFile8(absPath, newContent, "utf8");
+          const w = await safeWritePage(absPath, newContent);
+          if (!w.ok) {
+            unresolved.push(relPath);
+            continue;
+          }
           fixed.push(relPath);
         } catch {
           unresolved.push(relPath);
@@ -3133,7 +3221,7 @@ ${lines.join("\n")}`;
       for (const relPath of wikilinkCitationFlags) {
         try {
           const absPath = `${input.vault}/${relPath}`;
-          const raw = await readFile14(absPath, "utf8");
+          const raw = await readFile15(absPath, "utf8");
           const split = splitFrontmatter(raw);
           if (!split.ok) {
             unresolved.push(relPath);
@@ -3197,7 +3285,11 @@ ${lines.join("\n")}`;
 ${rawFm}
 ---
 ${newBody}`;
-          await writeFile8(absPath, newContent, "utf8");
+          const w = await safeWritePage(absPath, newContent);
+          if (!w.ok) {
+            unresolved.push(relPath);
+            continue;
+          }
           wikilinkFixed.push(relPath);
         } catch {
           unresolved.push(relPath);
@@ -3286,14 +3378,14 @@ ${match.length === 0 ? "0 violations" : match.map((b) => `  ${b.kind}: ${b.items
 }
 
 // src/commands/config.ts
-import { readFile as readFile15 } from "fs/promises";
+import { readFile as readFile16 } from "fs/promises";
 import { existsSync as existsSync4 } from "fs";
-import { join as join19 } from "path";
+import { join as join20 } from "path";
 function validateKey(key) {
   return CONFIG_KEYS.includes(key) || isValidWikiProfileKey(key);
 }
 function configPath(home) {
-  return join19(home, ".skillwiki", ".env");
+  return join20(home, ".skillwiki", ".env");
 }
 async function runConfigGet(input) {
   if (!validateKey(input.key)) {
@@ -3311,7 +3403,7 @@ async function runConfigSet(input) {
   try {
     let originalContent;
     try {
-      originalContent = await readFile15(filePath, "utf8");
+      originalContent = await readFile16(filePath, "utf8");
     } catch {
     }
     const existing = originalContent !== void 0 ? parseDotenvText(originalContent) : {};
@@ -3348,13 +3440,13 @@ async function runConfigPath(input) {
 
 // src/commands/doctor.ts
 import { existsSync as existsSync6, lstatSync, readlinkSync, readdirSync, readFileSync as readFileSync6, statSync as statSync2 } from "fs";
-import { join as join22, resolve as resolve4 } from "path";
+import { join as join23, resolve as resolve4 } from "path";
 import { execSync } from "child_process";
 import { platform } from "os";
 
 // src/utils/auto-update.ts
 import { readFileSync as readFileSync4, writeFileSync as writeFileSync3, existsSync as existsSync5, mkdirSync as mkdirSync2 } from "fs";
-import { join as join20, dirname as dirname7 } from "path";
+import { join as join21, dirname as dirname8 } from "path";
 import { spawn } from "child_process";
 
 // src/utils/update-consts.ts
@@ -3365,7 +3457,7 @@ var CLI_DISABLE_FLAG = "--no-update-notifier";
 
 // src/utils/auto-update.ts
 function cachePath(home) {
-  return join20(home, ".skillwiki", CACHE_FILENAME);
+  return join21(home, ".skillwiki", CACHE_FILENAME);
 }
 function readCacheRaw(home) {
   try {
@@ -3384,7 +3476,7 @@ function readCache(home) {
 }
 function writeCache(home, cache) {
   const p = cachePath(home);
-  mkdirSync2(dirname7(p), { recursive: true });
+  mkdirSync2(dirname8(p), { recursive: true });
   writeFileSync3(p, JSON.stringify(cache, null, 2));
 }
 function latestFromCache(home, currentVersion) {
@@ -3415,12 +3507,12 @@ function triggerAutoUpdate(home, currentVersion) {
 
 // src/utils/plugin-registry.ts
 import { readFileSync as readFileSync5 } from "fs";
-import { join as join21 } from "path";
-var REGISTRY_PATH = join21(".claude", "plugins", "installed_plugins.json");
+import { join as join22 } from "path";
+var REGISTRY_PATH = join22(".claude", "plugins", "installed_plugins.json");
 var PLUGIN_KEY = "skillwiki@llm-wiki";
 function readInstalledPlugins(home) {
   try {
-    const raw = readFileSync5(join21(home, REGISTRY_PATH), "utf8");
+    const raw = readFileSync5(join22(home, REGISTRY_PATH), "utf8");
     return JSON.parse(raw);
   } catch {
     return null;
@@ -3463,12 +3555,12 @@ function detectCliChannels(argv, home) {
   }
   const plugin = findPlugin(home);
   if (plugin) {
-    const pluginBin = join22(plugin.installPath, "bin", "skillwiki");
+    const pluginBin = join23(plugin.installPath, "bin", "skillwiki");
     if (existsSync6(pluginBin)) {
       channels.push({ name: "plugin", path: pluginBin, isDevLink: false });
     }
   }
-  const installBin = join22(home, ".claude", "skills", "bin", "skillwiki");
+  const installBin = join23(home, ".claude", "skills", "bin", "skillwiki");
   if (existsSync6(installBin)) {
     channels.push({ name: "install", path: installBin, isDevLink: false });
   }
@@ -3549,9 +3641,9 @@ function checkVaultStructure(resolvedPath) {
     return check("error", "vault_structure", "Vault structure valid", "Cannot check \u2014 vault directory does not exist");
   }
   const missing = [];
-  if (!existsSync6(join22(resolvedPath, "SCHEMA.md"))) missing.push("SCHEMA.md");
+  if (!existsSync6(join23(resolvedPath, "SCHEMA.md"))) missing.push("SCHEMA.md");
   for (const dir of ["raw", "entities", "concepts", "meta"]) {
-    if (!existsSync6(join22(resolvedPath, dir))) missing.push(dir + "/");
+    if (!existsSync6(join23(resolvedPath, dir))) missing.push(dir + "/");
   }
   if (missing.length === 0) {
     return check("pass", "vault_structure", "Vault structure valid", "All required files and directories present");
@@ -3559,7 +3651,7 @@ function checkVaultStructure(resolvedPath) {
   return check("warn", "vault_structure", "Vault structure valid", `Missing: ${missing.join(", ")} \u2014 run \`skillwiki init\` to add CodeWiki structure`);
 }
 function checkSkillsInstalled(home, cwd) {
-  const srcDir = cwd ? join22(cwd, "packages", "skills") : void 0;
+  const srcDir = cwd ? join23(cwd, "packages", "skills") : void 0;
   if (srcDir && existsSync6(srcDir)) {
     const found = findSkillMd(srcDir);
     if (found.length > 0) {
@@ -3573,7 +3665,7 @@ function checkSkillsInstalled(home, cwd) {
       return check("pass", "skills_installed", "Skills installed", `${found.length} SKILL.md file(s) found (plugin v${plugin.version})`);
     }
   }
-  const skillsDir = join22(home, ".claude", "skills");
+  const skillsDir = join23(home, ".claude", "skills");
   if (existsSync6(skillsDir)) {
     const found = findSkillMd(skillsDir);
     if (found.length > 0) {
@@ -3584,10 +3676,10 @@ function checkSkillsInstalled(home, cwd) {
 }
 function checkDuplicateSkills(home) {
   const plugin = findPlugin(home);
-  const skillsDir = join22(home, ".claude", "skills");
+  const skillsDir = join23(home, ".claude", "skills");
   const agentSkillDirs = [
-    { label: "~/.codex/skills/", path: join22(home, ".codex", "skills") },
-    { label: "~/.agents/skills/", path: join22(home, ".agents", "skills") }
+    { label: "~/.codex/skills/", path: join23(home, ".codex", "skills") },
+    { label: "~/.agents/skills/", path: join23(home, ".agents", "skills") }
   ];
   if (!plugin) {
     return check("pass", "skills_duplicate", "Skills not duplicated", "Single install channel");
@@ -3664,7 +3756,7 @@ async function checkProfiles(home) {
 }
 async function checkProjectLocalOverride(cwd) {
   const dir = cwd ?? process.cwd();
-  const envPath = join22(dir, ".skillwiki", ".env");
+  const envPath = join23(dir, ".skillwiki", ".env");
   if (existsSync6(envPath)) {
     return check("pass", "project_local", "Project-local config", `Found: ${envPath}`);
   }
@@ -3674,7 +3766,7 @@ function checkVaultGitRemote(resolvedPath) {
   if (resolvedPath === void 0) {
     return check("error", "vault_git_remote", "Vault git remote", "Cannot check \u2014 WIKI_PATH not resolved");
   }
-  if (!existsSync6(join22(resolvedPath, ".git"))) {
+  if (!existsSync6(join23(resolvedPath, ".git"))) {
     return check("warn", "vault_git_remote", "Vault git remote", "Vault is not a git repository \u2014 sync features unavailable");
   }
   try {
@@ -3697,9 +3789,9 @@ function checkObsidianTemplates(resolvedPath) {
     return check("error", "obsidian_templates", "Obsidian templates", "Cannot check \u2014 WIKI_PATH not resolved");
   }
   const missing = [];
-  if (!existsSync6(join22(resolvedPath, "_Templates"))) missing.push("_Templates/");
-  if (!existsSync6(join22(resolvedPath, ".obsidian", "templates.json"))) missing.push(".obsidian/templates.json");
-  if (!existsSync6(join22(resolvedPath, ".obsidian", "app.json"))) missing.push(".obsidian/app.json");
+  if (!existsSync6(join23(resolvedPath, "_Templates"))) missing.push("_Templates/");
+  if (!existsSync6(join23(resolvedPath, ".obsidian", "templates.json"))) missing.push(".obsidian/templates.json");
+  if (!existsSync6(join23(resolvedPath, ".obsidian", "app.json"))) missing.push(".obsidian/app.json");
   if (missing.length === 0) {
     return check("pass", "obsidian_templates", "Obsidian templates", "Template folder and config present");
   }
@@ -3709,7 +3801,7 @@ function checkDotStoreClean(resolvedPath) {
   if (resolvedPath === void 0) {
     return check("error", "dsstore_clean", "No .DS_Store in raw/", "Cannot check \u2014 WIKI_PATH not resolved");
   }
-  const rawDir = join22(resolvedPath, "raw");
+  const rawDir = join23(resolvedPath, "raw");
   if (!existsSync6(rawDir)) {
     return check("pass", "dsstore_clean", "No .DS_Store in raw/", "raw/ directory not found \u2014 check skipped");
   }
@@ -3725,7 +3817,7 @@ function checkDotStoreClean(resolvedPath) {
       if (entry.name === ".DS_Store") {
         found.push(rel ? `${rel}/.DS_Store` : ".DS_Store");
       } else if (entry.isDirectory()) {
-        walk2(join22(dir, entry.name), rel ? `${rel}/${entry.name}` : entry.name);
+        walk2(join23(dir, entry.name), rel ? `${rel}/${entry.name}` : entry.name);
       }
     }
   })(rawDir, "");
@@ -3738,7 +3830,7 @@ function checkSyncLastPush(resolvedPath) {
   if (resolvedPath === void 0) {
     return check("error", "sync_last_push", "Vault sync recency", "Cannot check \u2014 WIKI_PATH not resolved");
   }
-  if (!existsSync6(join22(resolvedPath, ".git"))) {
+  if (!existsSync6(join23(resolvedPath, ".git"))) {
     return check("pass", "sync_last_push", "Vault sync recency", "No git repo \u2014 sync check skipped");
   }
   let timestamp;
@@ -3812,7 +3904,7 @@ function checkS3MountPerf(resolvedPath) {
   if (!mountPoint) {
     return check("pass", "s3_mount_perf", "S3 mount performance", "local disk");
   }
-  const conceptsDir = join22(resolvedPath, "concepts");
+  const conceptsDir = join23(resolvedPath, "concepts");
   if (!existsSync6(conceptsDir)) {
     return check("pass", "s3_mount_perf", "S3 mount performance", `S3 FUSE mount (${mountPoint}), no concepts/ to benchmark`);
   }
@@ -3862,9 +3954,9 @@ function findSkillMd(dir) {
   }
   for (const entry of entries) {
     if (entry.isFile() && entry.name === "SKILL.md") {
-      results.push(join22(dir, entry.name));
+      results.push(join23(dir, entry.name));
     } else if (entry.isDirectory()) {
-      results.push(...findSkillMd(join22(dir, entry.name)));
+      results.push(...findSkillMd(join23(dir, entry.name)));
     }
   }
   return results;
@@ -3878,7 +3970,7 @@ function findSkillNames(dir) {
     return results;
   }
   for (const entry of entries) {
-    if (entry.isDirectory() && existsSync6(join22(dir, entry.name, "SKILL.md"))) {
+    if (entry.isDirectory() && existsSync6(join23(dir, entry.name, "SKILL.md"))) {
       results.push(entry.name);
     }
   }
@@ -3932,8 +4024,8 @@ async function runDoctor(input) {
 }
 
 // src/commands/archive.ts
-import { rename as rename4, mkdir as mkdir8, readFile as readFile16, writeFile as writeFile9 } from "fs/promises";
-import { join as join23, dirname as dirname8 } from "path";
+import { rename as rename5, mkdir as mkdir8, readFile as readFile17, writeFile as writeFile9 } from "fs/promises";
+import { join as join24, dirname as dirname9 } from "path";
 async function runArchive(input) {
   const scan = await scanVault(input.vault);
   if (!scan.ok) return { exitCode: ExitCode.VAULT_PATH_INVALID, result: scan };
@@ -3949,13 +4041,13 @@ async function runArchive(input) {
   }
   if (!relPath) return { exitCode: ExitCode.ARCHIVE_TARGET_NOT_FOUND, result: err("ARCHIVE_TARGET_NOT_FOUND", { page: input.page }) };
   if (relPath.startsWith("_archive/")) return { exitCode: ExitCode.ARCHIVE_ALREADY_ARCHIVED, result: err("ARCHIVE_ALREADY_ARCHIVED", { page: relPath }) };
-  const archivePath = join23("_archive", relPath).replace(/\\/g, "/");
-  await mkdir8(dirname8(join23(input.vault, archivePath)), { recursive: true });
+  const archivePath = join24("_archive", relPath).replace(/\\/g, "/");
+  await mkdir8(dirname9(join24(input.vault, archivePath)), { recursive: true });
   let indexUpdated = false;
   if (!isRaw) {
-    const indexPath = join23(input.vault, "index.md");
+    const indexPath = join24(input.vault, "index.md");
     try {
-      const idx = await readFile16(indexPath, "utf8");
+      const idx = await readFile17(indexPath, "utf8");
       const slug = relPath.replace(/\.md$/, "").split("/").pop();
       const originalLines = idx.split("\n");
       const filtered = originalLines.filter((l) => !l.includes(`[[${slug}]]`));
@@ -3967,7 +4059,7 @@ async function runArchive(input) {
       if (e instanceof Error && "code" in e && e.code !== "ENOENT") throw e;
     }
   }
-  await rename4(join23(input.vault, relPath), join23(input.vault, archivePath));
+  await rename5(join24(input.vault, relPath), join24(input.vault, archivePath));
   appendLastOp(input.vault, {
     operation: "archive",
     summary: `moved ${relPath} to ${archivePath}`,
@@ -3979,7 +4071,6 @@ async function runArchive(input) {
 
 // src/commands/drift.ts
 import { createHash as createHash3 } from "crypto";
-import { writeFile as writeFile10 } from "fs/promises";
 
 // src/utils/fetch.ts
 async function controlledFetch(url, opts) {
@@ -4066,7 +4157,7 @@ async function runDrift(input) {
 ${newFm}
 ---
 ${body}`;
-      await writeFile10(raw.absPath, newText, "utf8");
+      await safeWritePage(raw.absPath, newText);
       results.push({
         raw_path: raw.relPath,
         source_url: sourceUrl,
@@ -4109,7 +4200,6 @@ ${body}`;
 }
 
 // src/commands/migrate-citations.ts
-import { writeFile as writeFile11 } from "fs/promises";
 var MARKER_RE2 = /\^\[(raw\/[^\]]+)\]/g;
 function moveMarkersToParagraphEnd(body) {
   const lines = body.split("\n");
@@ -4232,7 +4322,11 @@ ${migratedBody}${newFooter}`;
       continue;
     }
     if (!input.dryRun) {
-      await writeFile11(page.absPath, newText, "utf8");
+      const w = await safeWritePage(page.absPath, newText);
+      if (!w.ok) {
+        skipped.push(page.relPath);
+        continue;
+      }
     }
     migrated.push(page.relPath);
   }
@@ -4262,7 +4356,6 @@ ${migratedBody}${newFooter}`;
 }
 
 // src/commands/frontmatter-fix.ts
-import { writeFile as writeFile12 } from "fs/promises";
 function isoToday() {
   return (/* @__PURE__ */ new Date()).toISOString().slice(0, 10);
 }
@@ -4304,7 +4397,11 @@ ${newBody}`;
       continue;
     }
     if (!input.dryRun) {
-      await writeFile12(page.absPath, newText, "utf8");
+      const w = await safeWritePage(page.absPath, newText);
+      if (!w.ok) {
+        skipped.push(page.relPath);
+        continue;
+      }
     }
     fixed.push(page.relPath);
   }
@@ -4337,14 +4434,14 @@ ${newBody}`;
 // src/commands/update.ts
 import { execSync as execSync2 } from "child_process";
 import { readFileSync as readFileSync7 } from "fs";
-import { join as join24 } from "path";
+import { join as join25 } from "path";
 function resolveGlobalSkillsRoot() {
   try {
     const globalRoot = execSync2("npm root -g", {
       encoding: "utf8",
       timeout: 5e3
     }).trim();
-    return join24(globalRoot, "skillwiki", "skills");
+    return join25(globalRoot, "skillwiki", "skills");
   } catch {
     return null;
   }
@@ -4370,7 +4467,7 @@ async function runUpdate(input) {
   );
   const currentVersion = pkg2.version;
   const tag = input.distTag ?? "latest";
-  const target = join24(input.home, ".claude", "skills");
+  const target = join25(input.home, ".claude", "skills");
   let latest;
   try {
     latest = execSync2(`npm view skillwiki@${tag} version`, {
@@ -4441,14 +4538,14 @@ async function runUpdate(input) {
 // src/commands/self-update.ts
 import { execSync as execSync3 } from "child_process";
 import { existsSync as existsSync7, readFileSync as readFileSync8 } from "fs";
-import { join as join25 } from "path";
+import { join as join26 } from "path";
 var DEFAULT_SOURCE_ROOT_SUFFIX = "/Desktop/code/llm-wiki";
 async function runSelfUpdate(input) {
   const currentVersion = JSON.parse(
     readFileSync8(new URL("../../package.json", import.meta.url), "utf8")
   ).version;
   const sourceRoot = input.sourceRoot ?? `${input.home}${DEFAULT_SOURCE_ROOT_SUFFIX}`;
-  const localPkgPath = join25(sourceRoot, "packages", "cli", "package.json");
+  const localPkgPath = join26(sourceRoot, "packages", "cli", "package.json");
   const hasLocalSource = existsSync7(localPkgPath);
   if (input.check) {
     let availableVersion = null;
@@ -4580,10 +4677,10 @@ async function runSelfUpdate(input) {
 }
 
 // src/commands/transcripts.ts
-import { readdir as readdir5, stat as stat6, readFile as readFile17 } from "fs/promises";
-import { join as join26 } from "path";
+import { readdir as readdir5, stat as stat6, readFile as readFile18 } from "fs/promises";
+import { join as join27 } from "path";
 async function runTranscripts(input) {
-  const dir = join26(input.vault, "raw", "transcripts");
+  const dir = join27(input.vault, "raw", "transcripts");
   let entries;
   try {
     entries = await readdir5(dir, { withFileTypes: true });
@@ -4593,8 +4690,8 @@ async function runTranscripts(input) {
   const transcripts = [];
   for (const entry of entries) {
     if (!entry.isFile() || !entry.name.endsWith(".md")) continue;
-    const filePath = join26(dir, entry.name);
-    const content = await readFile17(filePath, "utf8");
+    const filePath = join27(dir, entry.name);
+    const content = await readFile18(filePath, "utf8");
     const fm = extractFrontmatter(content);
     if (!fm.ok) continue;
     const ingested = typeof fm.data.ingested === "string" ? fm.data.ingested : "";
@@ -4611,12 +4708,12 @@ async function runTranscripts(input) {
 }
 
 // src/commands/project-index.ts
-import { readdir as readdir6, readFile as readFile18, writeFile as writeFile13, mkdir as mkdir9 } from "fs/promises";
-import { join as join27, dirname as dirname9 } from "path";
+import { readdir as readdir6, readFile as readFile19, writeFile as writeFile10, mkdir as mkdir9 } from "fs/promises";
+import { join as join28, dirname as dirname10 } from "path";
 var LAYER2_DIRS = ["entities", "concepts", "comparisons", "queries", "meta"];
 async function runProjectIndex(input) {
   const slug = input.slug;
-  const projectDir = join27(input.vault, "projects", slug);
+  const projectDir = join28(input.vault, "projects", slug);
   try {
     await readdir6(projectDir);
   } catch {
@@ -4627,15 +4724,15 @@ async function runProjectIndex(input) {
   }
   const wikilinkPattern = `[[${slug}]]`;
   const entries = [];
-  const compoundDir = join27(input.vault, "projects", slug, "compound");
+  const compoundDir = join28(input.vault, "projects", slug, "compound");
   try {
     const compoundFiles = await readdir6(compoundDir, { withFileTypes: true });
     for (const entry of compoundFiles) {
       if (!entry.isFile() || !entry.name.endsWith(".md")) continue;
-      const filePath = join27(compoundDir, entry.name);
+      const filePath = join28(compoundDir, entry.name);
       let text;
       try {
-        text = await readFile18(filePath, "utf8");
+        text = await readFile19(filePath, "utf8");
       } catch {
         continue;
       }
@@ -4652,16 +4749,16 @@ async function runProjectIndex(input) {
   for (const dir of LAYER2_DIRS) {
     let files;
     try {
-      files = await readdir6(join27(input.vault, dir), { withFileTypes: true });
+      files = await readdir6(join28(input.vault, dir), { withFileTypes: true });
     } catch {
       continue;
     }
     for (const entry of files) {
       if (!entry.isFile() || !entry.name.endsWith(".md")) continue;
-      const filePath = join27(input.vault, dir, entry.name);
+      const filePath = join28(input.vault, dir, entry.name);
       let text;
       try {
-        text = await readFile18(filePath, "utf8");
+        text = await readFile19(filePath, "utf8");
       } catch {
         continue;
       }
@@ -4682,11 +4779,11 @@ async function runProjectIndex(input) {
     const tb = typeOrder[b.type] ?? 99;
     return ta !== tb ? ta - tb : a.title.localeCompare(b.title);
   });
-  const indexPath = join27(projectDir, "knowledge.md");
+  const indexPath = join28(projectDir, "knowledge.md");
   let existing = false;
   let stale = false;
   try {
-    const existingText = await readFile18(indexPath, "utf8");
+    const existingText = await readFile19(indexPath, "utf8");
     existing = true;
     const existingEntries = existingText.split("\n").filter((l) => l.startsWith("- [["));
     const existingPages = new Set(existingEntries.map((l) => {
@@ -4726,8 +4823,8 @@ Autogenerated by \`skillwiki project-index\` on ${today}.
   }
   if (input.apply) {
     try {
-      await mkdir9(dirname9(indexPath), { recursive: true });
-      await writeFile13(indexPath, body, "utf8");
+      await mkdir9(dirname10(indexPath), { recursive: true });
+      await writeFile10(indexPath, body, "utf8");
     } catch (e) {
       return {
         exitCode: ExitCode.WRITE_FAILED,
@@ -4755,10 +4852,10 @@ ${entries.map((e) => `  ${e.type}: [[${e.page.replace(/\.md$/, "")}]] \u2014 ${e
 }
 
 // src/commands/compound.ts
-import { writeFile as writeFile14, mkdir as mkdir10, readdir as readdir7, unlink as unlink2 } from "fs/promises";
-import { join as join28 } from "path";
+import { writeFile as writeFile11, mkdir as mkdir10, readdir as readdir7, unlink as unlink3 } from "fs/promises";
+import { join as join29 } from "path";
 import { existsSync as existsSync8 } from "fs";
-import { readFile as readFile19 } from "fs/promises";
+import { readFile as readFile20 } from "fs/promises";
 var RETRO_HEADING_RE = /^## \[(\d{4}-\d{2}-\d{2})(?:\s+[^\]]+)?\] retro \| loop cycle(?: (\d+))?: (.+)$/;
 var FIELD_RE = {
   improve: /^-\s+\*?\*?Improve:?\*?\*?\s*(.+)$/m,
@@ -4856,17 +4953,17 @@ function extractRetroFields(date, cycleName, block) {
   };
 }
 async function runCompound(input) {
-  const logPath = join28(input.vault, "log.md");
+  const logPath = join29(input.vault, "log.md");
   let logText;
   try {
-    logText = await readFile19(logPath, "utf8");
+    logText = await readFile20(logPath, "utf8");
   } catch {
     return { exitCode: ExitCode.FILE_NOT_FOUND, result: err("FILE_NOT_FOUND", { path: logPath }) };
   }
   const entries = parseRetroEntries(logText);
   const promoted = [];
   const skipped = [];
-  const compoundDir = join28(input.vault, "projects", input.project, "compound");
+  const compoundDir = join29(input.vault, "projects", input.project, "compound");
   for (const entry of entries) {
     const generalizeValue = entry.generalize.trim();
     if (!/^yes/i.test(generalizeValue)) {
@@ -4874,7 +4971,7 @@ async function runCompound(input) {
       continue;
     }
     const slug = slugify(entry.cycleName);
-    const compoundPath = join28(compoundDir, `${slug}.md`);
+    const compoundPath = join29(compoundDir, `${slug}.md`);
     if (existsSync8(compoundPath)) {
       skipped.push(entry.date);
       continue;
@@ -4916,7 +5013,7 @@ async function runCompound(input) {
       if (!existsSync8(compoundDir)) {
         await mkdir10(compoundDir, { recursive: true });
       }
-      await writeFile14(compoundPath, content, "utf8");
+      await writeFile11(compoundPath, content, "utf8");
     }
     promoted.push(`${slug}.md`);
   }
@@ -4935,7 +5032,7 @@ async function runCompound(input) {
   };
 }
 async function runCompoundDelete(input) {
-  const projectDir = join28(input.vault, "projects", input.project);
+  const projectDir = join29(input.vault, "projects", input.project);
   if (!existsSync8(projectDir)) {
     return {
       exitCode: ExitCode.PROJECT_NOT_FOUND,
@@ -4943,7 +5040,7 @@ async function runCompoundDelete(input) {
     };
   }
   const entryName = input.entry.replace(/\.md$/, "");
-  const compoundPath = join28(projectDir, "compound", `${entryName}.md`);
+  const compoundPath = join29(projectDir, "compound", `${entryName}.md`);
   if (!existsSync8(compoundPath)) {
     return {
       exitCode: ExitCode.FILE_NOT_FOUND,
@@ -4951,7 +5048,7 @@ async function runCompoundDelete(input) {
     };
   }
   try {
-    await unlink2(compoundPath);
+    await unlink3(compoundPath);
   } catch (e) {
     return {
       exitCode: ExitCode.WRITE_FAILED,
@@ -4977,7 +5074,7 @@ knowledge.md regenerated`
   };
 }
 async function runCompoundList(input) {
-  const compoundDir = join28(input.vault, "projects", input.project, "compound");
+  const compoundDir = join29(input.vault, "projects", input.project, "compound");
   if (!existsSync8(compoundDir)) {
     return {
       exitCode: ExitCode.OK,
@@ -5008,10 +5105,10 @@ could not read compound directory`
   const entries = [];
   for (const dirent of dirents) {
     if (!dirent.isFile() || !dirent.name.endsWith(".md")) continue;
-    const filePath = join28(compoundDir, dirent.name);
+    const filePath = join29(compoundDir, dirent.name);
     let text;
     try {
-      text = await readFile19(filePath, "utf8");
+      text = await readFile20(filePath, "utf8");
     } catch {
       continue;
     }
@@ -5040,9 +5137,9 @@ no compound entries found`;
 }
 
 // src/commands/observe.ts
-import { mkdir as mkdir11, writeFile as writeFile15 } from "fs/promises";
+import { mkdir as mkdir11, writeFile as writeFile12 } from "fs/promises";
 import { existsSync as existsSync9, statSync as statSync3 } from "fs";
-import { join as join29 } from "path";
+import { join as join30 } from "path";
 import { createHash as createHash4 } from "crypto";
 var ALLOWED_KINDS = /* @__PURE__ */ new Set(["note", "bug", "task", "idea", "session-log"]);
 function slugify2(text) {
@@ -5071,7 +5168,7 @@ async function runObserve(input) {
       result: err("VAULT_PATH_INVALID", { path: input.vault })
     };
   }
-  const transcriptsDir = join29(input.vault, "raw", "transcripts");
+  const transcriptsDir = join30(input.vault, "raw", "transcripts");
   try {
     await mkdir11(transcriptsDir, { recursive: true });
   } catch {
@@ -5083,7 +5180,7 @@ async function runObserve(input) {
   const today = (/* @__PURE__ */ new Date()).toISOString().slice(0, 10);
   const slug = slugify2(input.text);
   const fileName = `${today}-observation-${slug}.md`;
-  const filePath = join29(transcriptsDir, fileName);
+  const filePath = join30(transcriptsDir, fileName);
   const body = `
 ${input.text.trim()}
 `;
@@ -5101,7 +5198,7 @@ ${input.text.trim()}
   frontmatterLines.push("---");
   const content = frontmatterLines.join("\n") + body;
   try {
-    await writeFile15(filePath, content, "utf8");
+    await writeFile12(filePath, content, "utf8");
   } catch (e) {
     return {
       exitCode: ExitCode.WRITE_FAILED,
@@ -5123,8 +5220,8 @@ ${input.text.trim()}
 }
 
 // src/commands/ingest.ts
-import { readFile as readFile20, writeFile as writeFile16, mkdir as mkdir12 } from "fs/promises";
-import { join as join30 } from "path";
+import { readFile as readFile21, writeFile as writeFile13, mkdir as mkdir12 } from "fs/promises";
+import { join as join31 } from "path";
 import { createHash as createHash5 } from "crypto";
 var ALLOWED_TYPES = /* @__PURE__ */ new Set(["entity", "concept", "comparison", "query"]);
 var TYPE_DIR = {
@@ -5283,7 +5380,7 @@ async function runIngest(input) {
     sourceContent = fetchResult.data.body;
   } else {
     try {
-      sourceContent = await readFile20(input.source, "utf8");
+      sourceContent = await readFile21(input.source, "utf8");
     } catch {
       return {
         exitCode: ExitCode.FILE_NOT_FOUND,
@@ -5298,8 +5395,8 @@ async function runIngest(input) {
   const rawRelPath = `raw/articles/${slug}.md`;
   const typedDir = TYPE_DIR[input.type] ?? `${input.type}s`;
   const typedRelPath = `${typedDir}/${slug}.md`;
-  const rawAbsPath = join30(input.vault, rawRelPath);
-  const typedAbsPath = join30(input.vault, typedRelPath);
+  const rawAbsPath = join31(input.vault, rawRelPath);
+  const typedAbsPath = join31(input.vault, typedRelPath);
   const rawContent = buildRawContent(sourceUrl, today, sha256, sourceContent);
   const typedContent = buildTypedContent(
     input.title,
@@ -5362,8 +5459,8 @@ async function runIngest(input) {
     };
   }
   try {
-    await mkdir12(join30(input.vault, "raw", "articles"), { recursive: true });
-    await writeFile16(rawAbsPath, rawContent, "utf8");
+    await mkdir12(join31(input.vault, "raw", "articles"), { recursive: true });
+    await writeFile13(rawAbsPath, rawContent, "utf8");
   } catch (e) {
     return {
       exitCode: ExitCode.WRITE_FAILED,
@@ -5371,8 +5468,8 @@ async function runIngest(input) {
     };
   }
   try {
-    await mkdir12(join30(input.vault, typedDir), { recursive: true });
-    await writeFile16(typedAbsPath, typedContent, "utf8");
+    await mkdir12(join31(input.vault, typedDir), { recursive: true });
+    await writeFile13(typedAbsPath, typedContent, "utf8");
   } catch (e) {
     return {
       exitCode: ExitCode.WRITE_FAILED,
@@ -5403,7 +5500,6 @@ async function runIngest(input) {
 }
 
 // src/commands/tag-sync.ts
-import { writeFile as writeFile17 } from "fs/promises";
 var ENUM_MIRRORS = {
   provenance: ["research", "project", "mixed"],
   confidence: ["high", "medium", "low"]
@@ -5518,7 +5614,11 @@ ${newFm}
 ---
 ${body}`;
     if (!input.dryRun) {
-      await writeFile17(page.absPath, newText, "utf8");
+      const w = await safeWritePage(page.absPath, newText);
+      if (!w.ok) {
+        unchanged++;
+        continue;
+      }
     }
     synced.push(page.relPath);
   }
@@ -5548,10 +5648,10 @@ ${body}`;
 
 // src/commands/sync.ts
 import { existsSync as existsSync10 } from "fs";
-import { join as join31 } from "path";
+import { join as join32 } from "path";
 function runSyncStatus(input) {
   const vault = input.vault;
-  if (!existsSync10(join31(vault, ".git"))) {
+  if (!existsSync10(join32(vault, ".git"))) {
     return {
       exitCode: ExitCode.VAULT_PATH_INVALID,
       result: ok({
@@ -5620,7 +5720,7 @@ function runSyncStatus(input) {
 }
 async function runSyncPush(input) {
   const vault = input.vault;
-  if (!existsSync10(join31(vault, ".git"))) {
+  if (!existsSync10(join32(vault, ".git"))) {
     return {
       exitCode: ExitCode.VAULT_PATH_INVALID,
       result: err("NOT_A_GIT_REPO", { path: vault })
@@ -5705,7 +5805,7 @@ async function runSyncPush(input) {
 }
 async function runSyncPull(input) {
   const vault = input.vault;
-  if (!existsSync10(join31(vault, ".git"))) {
+  if (!existsSync10(join32(vault, ".git"))) {
     return {
       exitCode: ExitCode.VAULT_PATH_INVALID,
       result: err("NOT_A_GIT_REPO", { path: vault })
@@ -5781,7 +5881,7 @@ async function runSyncPull(input) {
 
 // src/commands/backup.ts
 import { statSync as statSync4, readdirSync as readdirSync2, readFileSync as readFileSync9, mkdirSync as mkdirSync3, writeFileSync as writeFileSync4 } from "fs";
-import { join as join32, relative as relative3, dirname as dirname10 } from "path";
+import { join as join33, relative as relative3, dirname as dirname11 } from "path";
 import { PutObjectCommand, HeadObjectCommand, ListObjectsV2Command, GetObjectCommand, DeleteObjectsCommand } from "@aws-sdk/client-s3";
 
 // src/utils/s3-client.ts
@@ -5805,7 +5905,7 @@ var SKIP_DIRS = /* @__PURE__ */ new Set([".git", ".obsidian", "_archive", "node_
 function* walkMarkdown(dir, base) {
   for (const entry of readdirSync2(dir, { withFileTypes: true })) {
     if (SKIP_DIRS.has(entry.name)) continue;
-    const full = join32(dir, entry.name);
+    const full = join33(dir, entry.name);
     if (entry.isDirectory()) {
       yield* walkMarkdown(full, base);
     } else if (entry.name.endsWith(".md")) {
@@ -5828,7 +5928,7 @@ async function runBackupSync(input) {
   let failed = 0;
   const files = [...walkMarkdown(input.vault, input.vault)];
   for (const relPath of files) {
-    const absPath = join32(input.vault, relPath);
+    const absPath = join33(input.vault, relPath);
     const localStat = statSync4(absPath);
     let needsUpload = true;
     try {
@@ -5904,7 +6004,7 @@ async function runBackupRestore(input) {
     const objects = list.Contents ?? [];
     for (const obj of objects) {
       if (!obj.Key) continue;
-      const localPath = join32(target, obj.Key);
+      const localPath = join33(target, obj.Key);
       try {
         const localStat = statSync4(localPath);
         if (obj.LastModified && localStat.mtime > obj.LastModified) {
@@ -5917,7 +6017,7 @@ async function runBackupRestore(input) {
         const resp = await client.send(new GetObjectCommand({ Bucket: input.bucket, Key: obj.Key }));
         const body = await resp.Body?.transformToByteArray();
         if (body) {
-          mkdirSync3(dirname10(localPath), { recursive: true });
+          mkdirSync3(dirname11(localPath), { recursive: true });
           writeFileSync4(localPath, Buffer.from(body));
           downloaded++;
         }
@@ -5951,8 +6051,8 @@ async function runBackupRestore(input) {
 
 // src/commands/status.ts
 import { existsSync as existsSync11, statSync as statSync5 } from "fs";
-import { readFile as readFile21 } from "fs/promises";
-import { join as join33 } from "path";
+import { readFile as readFile22 } from "fs/promises";
+import { join as join34 } from "path";
 async function runStatus(input) {
   if (!existsSync11(input.vault)) {
     return { exitCode: ExitCode.VAULT_PATH_INVALID, result: err("VAULT_PATH_INVALID", { vault: input.vault }) };
@@ -5979,7 +6079,7 @@ async function runStatus(input) {
   const compound = scan.data.compound.length;
   let schemaVersion = "v1";
   try {
-    const schemaContent = await readFile21(join33(input.vault, "SCHEMA.md"), "utf8");
+    const schemaContent = await readFile22(join34(input.vault, "SCHEMA.md"), "utf8");
     const versionMatch = schemaContent.match(/version:\s*["']?([^"'\s\n]+)/i);
     if (versionMatch) schemaVersion = versionMatch[1];
   } catch {
@@ -6039,8 +6139,8 @@ async function runStatus(input) {
 }
 
 // src/commands/seed.ts
-import { mkdir as mkdir13, writeFile as writeFile18, stat as stat7 } from "fs/promises";
-import { join as join34 } from "path";
+import { mkdir as mkdir13, writeFile as writeFile14, stat as stat7 } from "fs/promises";
+import { join as join35 } from "path";
 var TODAY = (/* @__PURE__ */ new Date()).toISOString().slice(0, 10);
 var EXAMPLE_PAGES = {
   "entities/example-project.md": `---
@@ -6109,30 +6209,30 @@ Real sources are immutable after ingestion \u2014 never edit them.
 `;
 async function runSeed(input) {
   try {
-    await stat7(join34(input.vault, "SCHEMA.md"));
+    await stat7(join35(input.vault, "SCHEMA.md"));
   } catch {
     return { exitCode: ExitCode.VAULT_PATH_INVALID, result: err("VAULT_PATH_INVALID", { root: input.vault, reason: "SCHEMA.md missing \u2014 run `skillwiki init` first" }) };
   }
   const created = [];
   const skipped = [];
   for (const [relPath, content] of Object.entries(EXAMPLE_PAGES)) {
-    const absPath = join34(input.vault, relPath);
+    const absPath = join35(input.vault, relPath);
     try {
       await stat7(absPath);
       skipped.push(relPath);
     } catch {
-      await mkdir13(join34(absPath, ".."), { recursive: true });
-      await writeFile18(absPath, content, "utf8");
+      await mkdir13(join35(absPath, ".."), { recursive: true });
+      await writeFile14(absPath, content, "utf8");
       created.push(relPath);
     }
   }
-  const rawPath = join34(input.vault, "raw", "articles", "example-source.md");
+  const rawPath = join35(input.vault, "raw", "articles", "example-source.md");
   try {
     await stat7(rawPath);
     skipped.push("raw/articles/example-source.md");
   } catch {
-    await mkdir13(join34(rawPath, ".."), { recursive: true });
-    await writeFile18(rawPath, EXAMPLE_RAW, "utf8");
+    await mkdir13(join35(rawPath, ".."), { recursive: true });
+    await writeFile14(rawPath, EXAMPLE_RAW, "utf8");
     created.push("raw/articles/example-source.md");
   }
   if (created.length > 0) {
@@ -6154,9 +6254,9 @@ async function runSeed(input) {
 }
 
 // src/commands/canvas.ts
-import { readFile as readFile22, writeFile as writeFile19 } from "fs/promises";
+import { readFile as readFile23, writeFile as writeFile15 } from "fs/promises";
 import { existsSync as existsSync12 } from "fs";
-import { join as join35 } from "path";
+import { join as join36 } from "path";
 var NODE_WIDTH = 240;
 var NODE_HEIGHT = 60;
 var COLUMN_SPACING = 400;
@@ -6234,7 +6334,7 @@ function buildCanvasEdges(adjacency) {
   return edges;
 }
 async function runCanvasGenerate(input) {
-  const graphPath = input.graphPath ?? join35(input.vault, ".skillwiki", "graph.json");
+  const graphPath = input.graphPath ?? join36(input.vault, ".skillwiki", "graph.json");
   if (!existsSync12(graphPath)) {
     return {
       exitCode: ExitCode.FILE_NOT_FOUND,
@@ -6246,7 +6346,7 @@ async function runCanvasGenerate(input) {
   }
   let raw;
   try {
-    raw = await readFile22(graphPath, "utf8");
+    raw = await readFile23(graphPath, "utf8");
   } catch (e) {
     return {
       exitCode: ExitCode.FILE_NOT_FOUND,
@@ -6272,9 +6372,9 @@ async function runCanvasGenerate(input) {
   const nodes = buildCanvasNodes(paths);
   const edges = buildCanvasEdges(graph.adjacency);
   const canvas = { nodes, edges };
-  const outPath = join35(input.vault, "vault-graph.canvas");
+  const outPath = join36(input.vault, "vault-graph.canvas");
   try {
-    await writeFile19(outPath, JSON.stringify(canvas, null, 2));
+    await writeFile15(outPath, JSON.stringify(canvas, null, 2));
   } catch (e) {
     return {
       exitCode: ExitCode.WRITE_FAILED,
@@ -6294,8 +6394,8 @@ written: ${outPath}`
 }
 
 // src/commands/query.ts
-import { readFile as readFile23, stat as stat8 } from "fs/promises";
-import { join as join36 } from "path";
+import { readFile as readFile24, stat as stat8 } from "fs/promises";
+import { join as join37 } from "path";
 var W_KEYWORD = 2;
 var W_SOURCE_OVERLAP = 4;
 var W_WIKILINK = 3;
@@ -6416,7 +6516,7 @@ function computeKeywordScore(terms, title, tags, body) {
   return score;
 }
 async function loadOrBuildGraph(vault) {
-  const graphPath = join36(vault, ".skillwiki", "graph.json");
+  const graphPath = join37(vault, ".skillwiki", "graph.json");
   let needsBuild = false;
   try {
     const fileStat = await stat8(graphPath);
@@ -6430,7 +6530,7 @@ async function loadOrBuildGraph(vault) {
     if (buildResult.exitCode !== 0) return null;
   }
   try {
-    const raw = await readFile23(graphPath, "utf8");
+    const raw = await readFile24(graphPath, "utf8");
     return JSON.parse(raw);
   } catch {
     return null;
@@ -6439,13 +6539,13 @@ async function loadOrBuildGraph(vault) {
 
 // src/utils/auto-commit.ts
 import { existsSync as existsSync13 } from "fs";
-import { join as join37 } from "path";
+import { join as join38 } from "path";
 async function postCommit(vault, exitCode) {
   if (exitCode !== 0) return;
   const home = process.env.HOME ?? "";
   const dotenv = await parseDotenvFile(configPath(home));
   if (dotenv["AUTO_COMMIT"] === "false") return;
-  if (!existsSync13(join37(vault, ".git"))) return;
+  if (!existsSync13(join38(vault, ".git"))) return;
   const lastOps = readLastOp(vault);
   if (lastOps.length === 0) return;
   const porcelain = git(vault, ["status", "--porcelain"]);
@@ -6496,7 +6596,7 @@ program.command("validate <file>").description("validate vault page frontmatter
   emit(await runValidate({ file, apply: !!opts.apply, vault }), vault);
 });
 program.command("graph").description("graph subcommands").command("build <vault>").option("--out <path>", "graph output path (default: <vault>/.skillwiki/graph.json)").option("--wiki <name>", "wiki profile name").action(async (vault, opts) => {
-  const out = opts.out ?? join38(vault, ".skillwiki", "graph.json");
+  const out = opts.out ?? join39(vault, ".skillwiki", "graph.json");
   emit(await runGraphBuild({ vault, out }), vault);
 });
 var canvasCmd = program.command("canvas").description("manage Obsidian canvas files");

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "skillwiki",
-  "version": "0.5.3",
+  "version": "0.5.4",
   "type": "module",
   "bin": {
     "skillwiki": "dist/cli.js"

package/skills/.claude-plugin/plugin.json

@@ -1,6 +1,6 @@
 {
   "name": "skillwiki",
-  "version": "0.5.3",
+  "version": "0.5.4",
   "skills": "./",
   "description": "Project-aware Karpathy-style knowledge base for Claude Code: 18 prompt-only skills (wiki-*, proj-*, using-skillwiki) backed by the deterministic `skillwiki` CLI.",
   "author": {

package/skills/.codex-plugin/plugin.json

@@ -1,6 +1,6 @@
 {
   "name": "skillwiki",
-  "version": "0.5.3",
+  "version": "0.5.4",
   "description": "Project-aware Karpathy-style knowledge base for Codex with 18 prompt-only skills backed by the deterministic skillwiki CLI.",
   "author": {
     "name": "karlorz",

package/skills/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@skillwiki/skills",
-  "version": "0.5.3",
+  "version": "0.5.4",
   "private": true,
   "files": [
     "wiki-*",